dvi_16003

Name	Class	Family	Strand
Helitron-1N1_DVir	RC	Helitron	-

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ACTGCACGAAACGAATTCCAAAATTTGTCGCAATTTGCACGAGACGAAAGGTGCGTGCGTCGCCAAAAAGGATTTCCAAGTATAGCCTGTACCCATTGAAAATGACTCAGAAAAAGAGTATATTGCAGTTGTGCAACAAGAAACAGGCCGCAGCTCCGAGCGCAACCTGTACACTATGGATCAATGCCAATAGCTGGAACGACTTGATCATGTCCGTTTGTCTGTAAATTTGAAAGGAAGATAACGGAAAC ************************************************..(((.....)))..........(((((.(((((...))))).((((...))))((((.......))))...(((((....)))))......(((((..((.(((...)))))..)))))...((((((.......)).)))).)))))..************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR060677 Argx9_ovaries_total	SRR060666 160_males_carcasses_total	M047 female body	SRR060675 140x9_ovaries_total	SRR060676 9xArg_ovaries_total	SRR060680 9xArg_testes_total	SRR1106727 larvae	V053 head	V116 male body	SRR060662 9x160_0-2h_embryos_total	SRR060668 160x9_males_carcasses_total	SRR1106714 embryo_2-4h
................................ATTTGCACGAGACGAAAG.........................................................................................................................................................................................................	18	0	1	2.00	2	1	0	0	0	0	1	0	0	0	0	0	0
........................TTGTCGCAATTTGCACGAGACGAAAG.........................................................................................................................................................................................................	26	0	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0
...............................AATTTGCACGAGACGAAAG.........................................................................................................................................................................................................	19	0	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0
..................................................GTGCGTGCGTCGCCAAAAAGGATTTCCAA............................................................................................................................................................................	29	0	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0
.........AACGAATTCCAAAATTTGTCGCAATT........................................................................................................................................................................................................................	26	0	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
......................ATTTGTCGCAATTTGCACGAGACGAAAG.........................................................................................................................................................................................................	28	0	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0
........................TTGTCGCAATTTGCACGAG................................................................................................................................................................................................................	19	0	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
..................................................................................................AAAATGACTCAGGAAGAGAGT....................................................................................................................................	21	2	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0
..................................................................................................................................................................................................................................GATTTGGAAGGAAGAAAACGG....	21	3	2	0.50	1	0	0	0	0	0	0	0	0	0	1	0	0
...............TTGCAATATTTGGCGCAATTTGC.....................................................................................................................................................................................................................	23	3	2	0.50	1	1	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................AGAAAGAGATTATATTGAAGT..........................................................................................................................	21	3	15	0.07	1	0	0	0	0	0	0	0	0	0	0	1	0
..........................................................................................................................................................................................................CTTGAACATCTCCGTTGGT..............................	19	3	18	0.06	1	0	1	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................CCTGGACCCTATGGA.......................................................................	15	2	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1
.......................................................................................................................................................................................................CGACAAGATCATGTACGTT.................................	19	3	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0

TGACGTGCTTTGCTTAAGGTTTTAAACAGCGTTAAACGTGCTCTGCTTTCCACGCACGCAGCGGTTTTTCCTAAAGGTTCATATCGGACATGGGTAACTTTTACTGAGTCTTTTTCTCATATAACGTCAACACGTTGTTCTTTGTCCGGCGTCGAGGCTCGCGTTGGACATGTGATACCTAGTTACGGTTATCGACCTTGCTGAACTAGTACAGGCAAACAGACATTTAAACTTTCCTTCTATTGCCTTTG ************************************************..(((.....)))..........(((((.(((((...))))).((((...))))((((.......))))...(((((....)))))......(((((..((.(((...)))))..)))))...((((((.......)).)))).)))))..************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR060659 Argentina_testes_total	SRR060687 9_0-2h_embryos_total	SRR060681 Argx9_testes_total	SRR060664 9_males_carcasses_total	M047 female body	SRR060682 9x140_0-2h_embryos_total	SRR060685 9xArg_0-2h_embryos_total	V053 head	SRR060666 160_males_carcasses_total
...............................................................................................................................................................................................................AGGACAGGCAAACAGCCATT........................	20	2	1	1.00	1	0	1	0	0	0	0	0	0	0
......................................................................................................................................................TTCGAGGCTCGCGTTGGACATG...............................................................................	22	1	1	1.00	1	1	0	0	0	0	0	0	0	0
.................................................................................................CGTTTAGTGAGTCTTTTTCTCTT...................................................................................................................................	23	3	5	0.20	1	0	0	1	0	0	0	0	0	0
TGCCGTGCTTTGCTTAAC.........................................................................................................................................................................................................................................	18	2	10	0.20	2	0	0	0	0	0	1	1	0	0
..............................................................................................................................................................................................................AAGGACAGGCAAACAGCCATT........................	21	3	6	0.17	1	0	0	0	1	0	0	0	0	0
.....................................................................................................................................................CGTCGGGGCTAGCGTAGGAC..................................................................................	20	3	8	0.13	1	0	0	0	0	1	0	0	0	0
....................................................................................................................................CGTTGTACTTTCTCCGGGGT...................................................................................................	20	3	11	0.09	1	0	0	0	0	0	0	0	1	0
................................................................................................................................AAAAGGTTGTTCTTTGGCCG.......................................................................................................	20	3	16	0.06	1	0	0	0	0	0	0	0	0	1

Species	Coordinate	ID	Alignment
droVir3	scaffold_13047:8230992-8231242 -	dvi_16003	ACT-GCACGAAACGAATTCCAAA------------------------------ATTTGTCGCAATTT---GCACGA--------------GACGAAAGGTGCGTGCGTCGCCAAAAAG----GATTTCCAAGTATAGCCTGTACCCAT-------TGAAAATGACTCAGA-AAAAGAGTATATTGCA-----------GTTGT-----------------GCAACAA-GAAACAGGCCGCAGCTCCGAGCGC-A----ACCT-----GTACACTATGGATC-----------AATGCCAATAGCTGGAACGACT-TGATCATGTCCGTTTGTCTGTAAATTTGAAAGG-----AAGATAACGGAAAC-------------
droMoj3	scaffold_6540:27960690-27960943 +		ATT-GCACGAAACGAATTCCAAA------------------------------ATTTGTCGCAATTT---GCACGA--------------AACGAAAGGTGCG-------CTCAGGAA-----ATTATTTGTCATACCCTGTACTTAAAAGTAATTGAGCAAAACTTAGA-ACA-----------AATGCAATGGAAAGT-------------------TGTACTAGAAAAGGAGTTTATATTCCTTTGC-------------------ATACTC-TGTTCTGTGTATATAGAATATCGACAATCTAGCTGATCTTAGCAATGTCCGCCCGTTTGTCTG---------------TGATCTCCATGACTATAAATCTATAT
droGri2	scaffold_15126:3485608-3485848 +		AATCACAAGAACAAAATTTCGAA------------------------------ATGTGATGCTCTTTTATGCGCTC--------------AGCTTGCAGTGTGTGAGTTGCTCAGAACTAGTTTTTGGTTATTATACTCTGAATCCAT-------TAAAAATGG----GTAACAAGAGTATAATGGT-----------TTTGTGCAAA-------TGTATGTAACAG-GTGGAAGGAAGCATCTCCGA----------------------TATTCTTGATC-----------AGGGTCAACAGCCGAGTCGATA-TAGCCTTGTCCGTCTGTCGGTCCATCTGTATGAA-------------------------------
droWil2	scf2_1100000004943:11088728-11088918 -		AG------------------------------------------------------------------------------------------------------------------------GATCTCTATTTATACCCTGCACCACT-------A------GA----AT-GAAATGGTATATTAGA-----------GTCTCTGAAA-------TGTATGTAACAG-GCAGAAGAAAACTTTTTCGACCCT-TTTAAGTAT-----ATATATTCTTGATC-----------AGCATCAACAGCCGAGTCGATC-TAGTCATGTCCGTCTGGCCGTCTGTCTGTATGAACACCTAGATCTTGGAAA--------------
dp5	Unknown_singleton_3654:1028-1172 +		A---------------------------------------------------------------------------------------------------------------------------------ATTATACCCGATACTCAAAA-----T------GA----GT-ATTGGGGTATATTAGA-----------TTTGTGGTAAAAGTGGATGTGTGTAACG-----------------TCCAGCCCT-ATAAAGTAT-----ATATATTCTTGATC-----------AGCATCAATAGCCGAGTCGATT-GAGCCATGTCTGTCTGTCCGT--------------------------------------------
droPer2	scaffold_43:294971-295149 -		GTC-AAACGAGA--------------------------------------------------------------------------------------------------------------TATCCCTAATTATACCCGATACTCAAAA-----T------GA----GT-ATTGGGGTATATTAGA-----------TTTGTGGTAAAAGTGGATGTGTGTAACGT-CCAGAAGGAATCGTTTCCGACCCC-ATAAAGTAT-----ATATATTCTTGATC-----------AGCATCAATAGCCGAGTCGATT-GAGCCCTGTCTGTCTGTCCGT--------------------------------------------
droAna3	scaffold_126:2154-2260 -		T-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGCAACGC-AGTAAAGAAGACATCTCCGACCCT-ATAAAGTAT-----ATATATTGTTGATC-----------AGGGTCACCTCCTGAGTCGATA-TGAGCATGTCCGTTTGTCTGTATGTCTG-------------------------------------
droBip1	scf7180000395197:44645-44747 -		A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTGTGCAACGC-TGTGAAGGAGACATCTCCGACCCC-ATAAATTAT-----ATATATTTTTGATC-----------AGCATCAACAGCCGAGTCGATA-TAGCCATGTCCGTCTGTCCGT--------------------------------------------
droKik1	scf7180000302778:517027-517082 -		ATT-GCACGACACAAATTCAAAG------------------------------ATCTGTAGGAATTT---GCATGA--------------AACAAAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTTTGT--------------------------------------------
droFic1	scf7180000454096:1276609-1276664 +		ATT-GCATGACACCAACTCCAAG------------------------------ATCTGTCGCAATCT---GCATGA--------------AACAAAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTTCGT--------------------------------------------
droEle1	scf7180000486970:30955-31120 -		T------------------------------------------------------------------------------------------------------------------------------------ATAGCCGTTACTCGT-------A------GA----GT-AAAAGGGTATGT------------------------------------TGTAACAG-GTAGAAGGAAGCGTTTCCGACCAT-ATAAAT-ATAATAAATTTATTCTTAATC-----------AGGATAAATAGCCGAGTCGATC-TAGTCATGTACGTTTGTCTATCTGTCTGTGTGAACGTCGAGATTTCGGAAAC-------------
droRho1	scf7180000766880:1971-2186 -		AA---------ATAATTTAAAGAATTTGTTATATAAAATGGGCTGTGAATGGC-----------------------------------------------CAT-------CTCAGAAA--ATTGTAAGTATTTATACCCGTTACTCGT-------A------GA----GT-AAAAGGGTATATTATA-----------TTCGTGCAAA-------AGTATGTAACAG-CTAGAAGGAAGCGTTTCCGACCCT-ATAAAGTAT-----ATATATTCTTGATC-----------AGGGTCACTAGCCGAGTCGATA-TAGCCATGTCCGTCTGTCCGT--------------------------------------------
droBia1	scf7180000301397:4917-5071 -		A-----------------------------------------------------------------------------------------------------------------------------------------------------------------------GT-AAAAGGGTATACTAGA-----------TTCGTCGGAA-------AGTATGTAACAT-GTAGAAGAAAGCGTTTCCGACCCTTATAAAGTAT-----ATATATTCTTGATC-----------AGGATCACTAGCCGAGTCGACC-TAGCCATGTCCGTCTGTCCGTAT--------GAACGCTGAGATCTCGGAAAC-------------
droTak1	scf7180000415396:498297-498509 -		T---GAATGGGATAAATTCCGAA------------------------------ATAA-------TTC---AAACGACAATTTCTTTTGAAGAAGAAA-------------------------GGTCCATAATTATACCCGTTACTCGT-------A------GA----GT-AAAAGGGTATATTGTA-----------TTCGTGCAAA-------AGTATGTAACAG-GTAGAAGGAAGCGTTTCCGACCCC-ATAAAGTAT-----ATATATTCTTGATC-----------AGGATCACTAGCCGAGTCGATC-TAGCCATGTCCGTCTGTCCGT--------------------------------------------
droEug1	scf7180000409509:447613-447804 +		GCT-GAA----AACTATTTCGAA------------------------------ATATAA------------------------------------------------------------------CAATAATTATGCCCTCTACGGGGA------A------GG----GT-AAAGGGGTATACCG-T-----------TTCGTTGGGA-------AGTATGTAACGG-GGAGGAGGAAGTGACTTCGGTACT-GTAAGGTATATATTATATGTTCTTAATC-----------AGGATCAATAGCTGAGTAGGTT-TAGACATGTCTGTTTATCTGTAGGTCTG-------------------------------------
dm3	chrX:64708-64859 +		AAA---AG------------------------------------------------------------------------------------------------------------------------GGTTTATACCCATTACTCGT-------A------GA----AT-AAAATGGTATACTAGA-----------TTCGTTGAAA-------AGTATGTAACAG-GAAGAAGGAAGCGTCTCGAACCAA-AAAA------------ATATTCTGGTTT-----------AGGATCAATAGCCGAGTCGATC-TGGCCATGTCCGCCTGTCCGTA-------------------------------------------
droSim2	3l:19327936-19328062 -		A-----------------------------------------------------------------------------------------------------------------------------------------------------------------------GT-AAAAGAGTATACTAGA-----------TTCGTTG--------------------AG-GCAGAAGGAAGCGTTTCCGACC-------------------ATATTTTTGATC-----------AAGATCAATAGCCGAGTCGATC-TGGCCATGTCCGTCTGTACGTTT--------AAAC-TCGAGATCTCAGGAAT-------------
droSec2	scaffold_29:380147-380266 -		A-----------------------------------------------------------------------------------------------------------------------------------------------------------------------GT-AAAAGAGTATACTAGA-----------TTCGTTG--------------------AG-TTAGAAGGAAGCGTTTCCGACC-------------------ATATTATTGATC-----------AAGATCAATAGCCGAGTCGATC-TGGCCGTGTCCGTCTGTCCGTTT--------AAAC-TCGA-------GAAGG-------------
droYak3	3L:20727420-20727624 -		TCT-AAATGT------TTTCGCA--------------ATGTGCTACGTATGGG-----------------------------------------------C-TTAAGTTAATGATAA-----TAATTATAATTATACCCGTTACTCGT-------A------GA----GT-AATAGGGTATACTAGA-----------TTCGTTGAAA-------AGTATGTAACAG-GCAGAAGGAAGCTTTTCCGACCAT-ATAAAGTAC-----ATATATTCTTGATC-----------AGGATCAATAGCCGAGTCGATT-TGGCCATGTCCGTTCGTCT----------------------------------------------
droEre2	scaffold_4820:8743968-8744125 -		A---------------------------------------------------------------------------------------------------------------------------------AATATACCCGTTACTCGT-------A------GA----GT-AAAAGGGTATACTAGA-----------TTCGTTTAAA-------AAGATGTAACAG-GCAGAAGAAAGCGTTTCCGACCAT-ATAAAGTATATATATTATATTCTTGATC-----------AGGATCAATAGCCGAGGCGAAC-TGGTCATGTCCGTCTGGCCTTA-------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droVir3

ACT-GCACGAAACGAATTCCAAA------------------------------ATTTGTCGCAATTT---GCACGA--------------GACGAAAGGTGCGTGCGTCGCCAAAAAG----GATTTCCAAGTATAGCCTGTACCCAT-------TGAAAATGACTCAGA-AAAAGAGTATATTGCA-----------GTTGT-----------------GCAACAA-GAAACAGGCCGCAGCTCCGAGCGC-A----ACCT-----GTACACTATGGATC-----------AATGCCAATAGCTGGAACGACT-TGATCATGTCCGTTTGTCTGTAAATTTGAAAGG-----AAGATAACGGAAAC-------------	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
...............................................................ATTT---GCACGA--------------GACGAAAG..........................................................................................................................................................................................................................................................................................	18	1	2.00	2	0	0	0	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	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
.......................................................TTGTCGCAATTT---GCACGA--------------GACGAAAG..........................................................................................................................................................................................................................................................................................	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	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
..............................................................AATTT---GCACGA--------------GACGAAAG..........................................................................................................................................................................................................................................................................................	19	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	1	0	0	0	0	0	0	0
..................................................................................................GTGCGTGCGTCGCCAAAAAG----GATTTCCAA.........................................................................................................................................................................................................................................................	29	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	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
..........AACGAATTCCAAA------------------------------ATTTGTCGCAATT..........................................................................................................................................................................................................................................................................................................................	26	1	1.00	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
.....................................................ATTTGTCGCAATTT---GCACGA--------------GACGAAAG..........................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.......................................................TTGTCGCAATTT---GCACGA--------------G.................................................................................................................................................................................................................................................................................................	19	1	1.00	1	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

droMoj3

ATT-GCACGAAACGAATTCCAAA------------------------------ATTTGTCGCAATTT---GCACGA--------------AACGAAAGGTGCG-------CTCAGGAA-----ATTATTTGTCATACCCTGTACTTAAAAGTAATTGAGCAAAACTTAGA-ACA-----------AATGCAATGGAAAGT-------------------TGTACTAGAAAAGGAGTTTATATTCCTTTGC-------------------ATACTC-TGTTCTGTGTATATAGAATATCGACAATCTAGCTGATCTTAGCAATGTCCGCCCGTTTGTCTG---------------TGATCTCCATGACTATAAATCTATAT	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droGri2

AATCACAAGAACAAAATTTCGAA------------------------------ATGTGATGCTCTTTTATGCGCTC--------------AGCTTGCAGTGTGTGAGTTGCTCAGAACTAGTTTTTGGTTATTATACTCTGAATCCAT-------TAAAAATGG----GTAACAAGAGTATAATGGT-----------TTTGTGCAAA-------TGTATGTAACAG-GTGGAAGGAAGCATCTCCGA----------------------TATTCTTGATC-----------AGGGTCAACAGCCGAGTCGATA-TAGCCTTGTCCGTCTGTCGGTCCATCTGTATGAA-------------------------------	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droWil2

AG------------------------------------------------------------------------------------------------------------------------GATCTCTATTTATACCCTGCACCACT-------A------GA----AT-GAAATGGTATATTAGA-----------GTCTCTGAAA-------TGTATGTAACAG-GCAGAAGAAAACTTTTTCGACCCT-TTTAAGTAT-----ATATATTCTTGATC-----------AGCATCAACAGCCGAGTCGATC-TAGTCATGTCCGTCTGGCCGTCTGTCTGTATGAACACCTAGATCTTGGAAA--------------	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.................................................................................................................................................................................................................................................................................................................................................TGTCTGTATGAACACCTAGATCTTGG.................	26	2	0.50	1	0	1	0	0	0
...................................................................................................................................................................................................................................................................................TTGATC-----------AGCATCAACAGCCGAGTCGA....................................................................	26	20	0.50	10	0	0	0	10	0
....................................................................................................................................................................................................................................................................................TGATC-----------AGCATCAACAGCCGAGTCGATC-.................................................................	27	20	0.10	2	0	2	0	0	0
.................................................................................................................................................................................................................................................................................TCTTGATC-----------AGCATCAACAGCCGAGTCGA....................................................................	28	20	0.10	2	0	0	0	2	0
................................................................................................................................................................................................................................................................................................................CGAGTCGATC-TAGTCATGTCC......................................................	21	19	0.05	1	0	0	1	0	0
........................................................................................................................................................................................................................................................................................C-----------AGCATCAACAGCCGAGTCG.....................................................................	20	20	0.05	1	0	0	0	1	0
.................................................................................................................................................................................................................................................................................................................GAGTCGATC-TAGTCATGTCCG.....................................................	21	20	0.05	1	0	1	0	0	0
...............................................................................................................................................................................................................................................................................ATTCTTGATC-----------AGCATCAACAGCCGA.........................................................................	25	20	0.05	1	0	0	1	0	0
....................................................................................................................................................................................................................................................................................................................TCGATC-TAGTCATGTCCGT....................................................	19	20	0.05	1	0	0	0	1	0
................................................................................................................................................................................................................................................................................TTCTTGATC-----------AGCATCAACAGCCG..........................................................................	23	20	0.05	1	0	1	0	0	0
.................................................................................................................................................................................................................................................................................TCTTGATC-----------AGCATCAACAGCCGAGT.......................................................................	25	20	0.05	1	0	0	0	0	1
...................................................................................................................................................................................................................................................................................TTGATC-----------AGCATCAACAGCCGAGTCG.....................................................................	25	20	0.05	1	0	0	0	1	0

dp5

A---------------------------------------------------------------------------------------------------------------------------------ATTATACCCGATACTCAAAA-----T------GA----GT-ATTGGGGTATATTAGA-----------TTTGTGGTAAAAGTGGATGTGTGTAACG-----------------TCCAGCCCT-ATAAAGTAT-----ATATATTCTTGATC-----------AGCATCAATAGCCGAGTCGATT-GAGCCATGTCTGTCTGTCCGT--------------------------------------------	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
......................................................................................................................................................................................................TTTGTGGTAAAAGTGGATGTGTG...............................................................................................................................................................	23	20	98.60	1972	0	1972	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................TTTGTGGTAAAAGTGGATGTGTGT..............................................................................................................................................................	24	20	21.10	422	0	422	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................TTGTGGTAAAAGTGGATGTGTGT..............................................................................................................................................................	23	20	2.55	51	0	51	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................GAGTCGATT-GAGCCATGTCTG.....................................................	21	20	2.05	41	0	41	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................TGTGGTAAAAGTGGATGTGTG...............................................................................................................................................................	21	20	1.70	34	0	0	0	0	4	0	0	0	30	0
...................................................................................................................................................................................................................................................................................TTGATC-----------AGCATCAATAGCCGAGTCG.....................................................................	25	20	1.45	29	0	0	0	0	0	0	0	0	29	0
........................................................................................................................................................................................................TGTGGTAAAAGTGGATGTGTGTAAC...........................................................................................................................................................	25	20	1.05	21	0	21	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................TAAAAGTGGATGTGTGTAACG-----------------.........................................................................................................................................	21	20	0.95	19	0	19	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................GTGGTAAAAGTGGATGTGTG...............................................................................................................................................................	20	20	0.60	12	0	12	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................TAGA-----------TTTGTGGTAAAAGTGG......................................................................................................................................................................	20	20	0.55	11	0	0	0	0	0	0	0	0	11	0
................................................................................................................................................................................................................................................................................................................CGAGTCGATT-GAGCCATGTCT......................................................	21	20	0.55	11	0	10	0	0	0	0	1	0	0	0
.................................................................................................................................................................................................................AGTGGATGTGTGTAACG-----------------TC.......................................................................................................................................	19	20	0.55	11	0	11	0	0	0	0	0	0	0	0
.................................................................................................................................................CAAAA-----T------GA----GT-ATTGGGGT.........................................................................................................................................................................................................	18	20	0.50	10	0	10	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................A-----------TTTGTGGTAAAAGTGGATG...................................................................................................................................................................	20	20	0.50	10	0	10	0	0	0	0	0	0	0	0
......................................................................................................................................................................................TTAGA-----------TTTGTGGTAAAAGTGG......................................................................................................................................................................	21	20	0.45	9	0	0	0	0	0	0	8	0	0	1
.........................................................................................................................................................................................................GTGGTAAAAGTGGATGTGTGT..............................................................................................................................................................	21	20	0.45	9	0	0	0	0	0	0	9	0	0	0
....................................................................................................................................................................................TATTAGA-----------TTTGTGGTAAAAGTGGA.....................................................................................................................................................................	24	20	0.45	9	0	0	0	0	0	0	0	0	9	0
........................................................................................................................................................................................................TGTGGTAAAAGTGGATGTGTGTAACG-----------------T........................................................................................................................................	27	20	0.40	8	0	0	0	0	0	0	8	0	0	0
...........................................................................................................................................................................................................................................................................ATATATTCTTGATC-----------AGCATC..................................................................................	20	20	0.20	4	0	0	0	0	0	0	4	0	0	0
.....................................................................................................................................................................................ATTAGA-----------TTTGTGGTAAAAGT........................................................................................................................................................................	20	20	0.20	4	0	3	0	0	0	0	1	0	0	0
........................................................................................................................................................................................................TGTGGTAAAAGTGGATGTG.................................................................................................................................................................	19	20	0.20	4	0	0	0	0	0	0	4	0	0	0
..................................................................................................................................................................................TATATTAGA-----------TTTGTGGTAAAAGTGG......................................................................................................................................................................	25	20	0.20	4	0	0	0	0	0	0	0	0	4	0
...........................................................................................................................................................................ATTGGGGTATATTAGA-----------TTTGTG................................................................................................................................................................................	22	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................GTGGTAAAAGTGGATGTGTGTAACG-----------------.........................................................................................................................................	25	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................T-----ATATATTCTTGATC-----------AGCATC..................................................................................	21	20	0.15	3	0	0	0	0	0	0	0	0	3	0
.......................................................................................................................................................................................................................................................................................................................ATT-GAGCCATGTCTGTCTGTC...............................................	21	20	0.15	3	0	0	0	0	0	0	3	0	0	0
...........................................................................................................................................................................................................................................................................................................ATAGCCGAGTCGATT-GAGCCA...........................................................	21	20	0.15	3	0	0	0	0	0	0	3	0	0	0
..........................................................................................................................................................................................................TGGTAAAAGTGGATGTGTGTAACG-----------------T........................................................................................................................................	25	20	0.15	3	0	3	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................GCCGAGTCGATT-GAGCCATGTC.......................................................	22	20	0.10	2	0	2	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................GGTAAAAGTGGATGTGTGT..............................................................................................................................................................	19	20	0.10	2	0	2	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................GAGCCATGTCTGTCTGTCCGT--------------------------------------------	21	20	0.10	2	0	0	0	0	2	0	0	0	0	0
.....................................................................................................................................................A-----T------GA----GT-ATTGGGGTATATTAGA-----------......................................................................................................................................................................................	22	20	0.10	2	0	2	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................TTTGTGGTAAAAGTGGATGTGTGTC.............................................................................................................................................................	25	20	0.10	2	0	0	0	0	0	0	2	0	0	0
.....................................................................................................................................................................................................................................................................................................................CGATT-GAGCCATGTCTGTCTGTC...............................................	23	20	0.10	2	0	0	0	0	0	0	0	0	2	0
..........................................................................................................................................................................................A-----------TTTGTGGTAAAAGTGGATGTG.................................................................................................................................................................	22	20	0.10	2	0	0	0	0	0	0	0	0	2	0
.......................................................................................................................................................................................................TTGTGGTAAAAGTGGATG...................................................................................................................................................................	18	20	0.10	2	0	0	0	0	0	0	0	0	2	0
......................................................................................................................................................................................................TTTGTGGTAAAAGTGGATGTGTCG..............................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	1	0
.......................................................................................................................................................................................................................................................................................................ATCAATAGCCGAGTCGATT-GAGCCA...........................................................	25	20	0.05	1	0	0	0	0	0	0	1	0	0	0
.....................................................................................................................................................A-----T------GA----GT-ATTGGGGTATATTAG..................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	1	0	0	0
.......................................................................................................................................................................................TAGA-----------TTTGTGGTAAAAGTGGAT....................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	1	0
...................................................................................................................................................................A----GT-ATTGGGGTATATTAGA-----------......................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.......................................................................................................................................................................................TAGA-----------TTTGTGGTAAAAGTG.......................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	1
.........................................................................................................................................................................................GA-----------TTTGTGGTAAAAGTGGAT....................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1	0	0	0	0
.................................................................................................................................................................................GTATATTAGA-----------TTTGTGGTA.............................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................ATT-GAGCCATGTCTGTCTG.................................................	19	20	0.05	1	0	0	0	0	0	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................AGTCGATT-GAGCCATGTCTGTCT..................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................GAGTCGATT-GAGCCATGTCTGT....................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................TTTGTGGTAAAAGTGGATGTGTGTAAC...........................................................................................................................................................	27	20	0.05	1	0	0	0	1	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................CCGAGTCGATT-GAGCCATGTC.......................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................TGGGGTATATTAGA-----------TTTGTGG...............................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	1
...............................................................................................................................................................................................................................................................AAAGTAT-----ATATATTCTTGATC-----------AGCAT...................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	1	0
.................................................................................................................................................................................GTATATTAGA-----------TTTGTGGTAAAAGTG.......................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CTTGATC-----------AGCATCAATAGCCGAG........................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0
.................................................................................................................................................................................GTATATTAGA-----------TTTGTGGT..............................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	1
............................................................................................................................................................................TTGGGGTATATTAGA-----------TTTGTGGTAAA...........................................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	1	0
...............................................................................................................................................................................................................AAAGTGGATGTGTGTAACG-----------------TC.......................................................................................................................................	21	20	0.05	1	0	0	0	1	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................ATATTCTTGATC-----------AGCATCAATAGCCGAGT.......................................................................	29	20	0.05	1	0	0	0	0	0	0	1	0	0	0
.........................................................................................................................................................................................................GTGGTAAAAGTGGATGTGTGTAAC...........................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................CGAGTCGATT-GAGCCATGTCTGTCTG.................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................ATTATACCCGATACTCAAAA-----.................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0

droPer2

GTC-AAACGAGA--------------------------------------------------------------------------------------------------------------TATCCCTAATTATACCCGATACTCAAAA-----T------GA----GT-ATTGGGGTATATTAGA-----------TTTGTGGTAAAAGTGGATGTGTGTAACGT-CCAGAAGGAATCGTTTCCGACCCC-ATAAAGTAT-----ATATATTCTTGATC-----------AGCATCAATAGCCGAGTCGATT-GAGCCCTGTCTGTCTGTCCGT--------------------------------------------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
.................................................................................................................................................................................................................................................................................TCTTGATC-----------AGCATCAATAGCCGAGTCG.....................................................................	27	20	0.10	2	2	0	0	0	0	0

droAna3

T-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGCAACGC-AGTAAAGAAGACATCTCCGACCCT-ATAAAGTAT-----ATATATTGTTGATC-----------AGGGTCACCTCCTGAGTCGATA-TGAGCATGTCCGTTTGTCTGTATGTCTG-------------------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
...................................................................................................................................................................................................................................................................................TTGATC-----------AGGGTCACCTCCTGAG........................................................................	22	13	0.08	1	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................TCGATA-TGAGCATGTCCGTT...................................................	20	20	0.05	1	1	0	0	0	0	0

droBip1

A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTGTGCAACGC-TGTGAAGGAGACATCTCCGACCCC-ATAAATTAT-----ATATATTTTTGATC-----------AGCATCAACAGCCGAGTCGATA-TAGCCATGTCCGTCTGTCCGT--------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

ATT-GCACGACACAAATTCAAAG------------------------------ATCTGTAGGAATTT---GCATGA--------------AACAAAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTTTGT--------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

ATT-GCATGACACCAACTCCAAG------------------------------ATCTGTCGCAATCT---GCATGA--------------AACAAAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTTCGT--------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

T------------------------------------------------------------------------------------------------------------------------------------ATAGCCGTTACTCGT-------A------GA----GT-AAAAGGGTATGT------------------------------------TGTAACAG-GTAGAAGGAAGCGTTTCCGACCAT-ATAAAT-ATAATAAATTTATTCTTAATC-----------AGGATAAATAGCCGAGTCGATC-TAGTCATGTACGTTTGTCTATCTGTCTGTGTGAACGTCGAGATTTCGGAAAC-------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AA---------ATAATTTAAAGAATTTGTTATATAAAATGGGCTGTGAATGGC-----------------------------------------------CAT-------CTCAGAAA--ATTGTAAGTATTTATACCCGTTACTCGT-------A------GA----GT-AAAAGGGTATATTATA-----------TTCGTGCAAA-------AGTATGTAACAG-CTAGAAGGAAGCGTTTCCGACCCT-ATAAAGTAT-----ATATATTCTTGATC-----------AGGGTCACTAGCCGAGTCGATA-TAGCCATGTCCGTCTGTCCGT--------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

A-----------------------------------------------------------------------------------------------------------------------------------------------------------------------GT-AAAAGGGTATACTAGA-----------TTCGTCGGAA-------AGTATGTAACAT-GTAGAAGAAAGCGTTTCCGACCCTTATAAAGTAT-----ATATATTCTTGATC-----------AGGATCACTAGCCGAGTCGACC-TAGCCATGTCCGTCTGTCCGTAT--------GAACGCTGAGATCTCGGAAAC-------------	Size	Hit Count	Total Norm	Total
No Reads

droTak1

T---GAATGGGATAAATTCCGAA------------------------------ATAA-------TTC---AAACGACAATTTCTTTTGAAGAAGAAA-------------------------GGTCCATAATTATACCCGTTACTCGT-------A------GA----GT-AAAAGGGTATATTGTA-----------TTCGTGCAAA-------AGTATGTAACAG-GTAGAAGGAAGCGTTTCCGACCCC-ATAAAGTAT-----ATATATTCTTGATC-----------AGGATCACTAGCCGAGTCGATC-TAGCCATGTCCGTCTGTCCGT--------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

GCT-GAA----AACTATTTCGAA------------------------------ATATAA------------------------------------------------------------------CAATAATTATGCCCTCTACGGGGA------A------GG----GT-AAAGGGGTATACCG-T-----------TTCGTTGGGA-------AGTATGTAACGG-GGAGGAGGAAGTGACTTCGGTACT-GTAAGGTATATATTATATGTTCTTAATC-----------AGGATCAATAGCTGAGTAGGTT-TAGACATGTCTGTTTATCTGTAGGTCTG-------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

dm3

AAA---AG------------------------------------------------------------------------------------------------------------------------GGTTTATACCCATTACTCGT-------A------GA----AT-AAAATGGTATACTAGA-----------TTCGTTGAAA-------AGTATGTAACAG-GAAGAAGGAAGCGTCTCGAACCAA-AAAA------------ATATTCTGGTTT-----------AGGATCAATAGCCGAGTCGATC-TGGCCATGTCCGCCTGTCCGTA-------------------------------------------	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
..................................................................................................................................................................................................................................................................................................................AGTCGATC-TGGCCATGTCCGC....................................................	21	2	27.50	55	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	2	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	3	0	0	0	0	0	0	1	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	1	1	1	0	1	1	0	1	1	0	0	1	0	3	2	4	0	0	0	0	0	0	0	2	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	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	3	0	0	0	0	9	0	1	2	0	0	0	0	0	0	0	0	1	0	0	0	0	1	0	0	0	0	0	0	1	0	0	3	0
......................................................................................................................................................................................................................................................................................................................GATC-TGGCCATGTCCGCCTGT................................................	21	4	12.75	51	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	46	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
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......................................................................................................................................................................................................................................................................................................GATCAATAGCCGAGTCGATC-T................................................................	21	20	0.25	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	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
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.......................................................................................................................................................................................................................................................................................................ATCAATAGCCGAGTCGATC-TGG..............................................................	22	20	0.25	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	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
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......................................................................................................................................................................................................................................................................................................................GATC-TGGCCATGTCCGCCTG.................................................	20	4	0.25	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	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
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....................................................................................................................................................................................TACTAGA-----------TTCGTTGAAA-------AG...................................................................................................................................................................	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	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
.....................................................................................................................................................................................ACTAGA-----------TTCGTTGAAA-------AGTA.................................................................................................................................................................	20	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.......................................................................................................................................................................................TAGA-----------TTCGTTGAAA-------AGTATGTAACAG-G.......................................................................................................................................................	27	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	0	0	0	0	0	0	0	0	0	0	0	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
............................................................................................................................................................................................................................................................................................................TAGCCGAGTCGATC-TGGCCATGTC.......................................................	24	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	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................................................CAATAGCCGAGTCGATC-TGGCC............................................................	22	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	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

droSim2

A-----------------------------------------------------------------------------------------------------------------------------------------------------------------------GT-AAAAGAGTATACTAGA-----------TTCGTTG--------------------AG-GCAGAAGGAAGCGTTTCCGACC-------------------ATATTTTTGATC-----------AAGATCAATAGCCGAGTCGATC-TGGCCATGTCCGTCTGTACGTTT--------AAAC-TCGAGATCTCAGGAAT-------------	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
......................................................................................................................................................................................................TTCGTTG--------------------AG-GCAGAAGGAAGCGTT.........................................................................................................................................	24	1	22.00	22	0	0	0	0	0	0	2	3	4	1	7	0	4	1	0	0	0
...............................................................................................................................................................................GAGTATACTAGA-----------TTCGTTG--------------------AG-GCAGA...................................................................................................................................................	26	1	14.00	14	0	0	0	0	0	0	0	11	0	1	0	0	2	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................TACGTTT--------AAAC-TCGAGATCTCAGGAAT-------------	27	1	11.00	11	0	0	5	0	0	0	3	0	1	0	2	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................TGTCCGTCTGTACGTTT--------AAAC-TCGAGA.......................	27	1	7.00	7	0	0	2	0	0	0	4	0	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................TACGTTT--------AAAC-TCGAGATCTCAGGAA..............	26	1	6.00	6	0	0	4	0	0	0	0	0	0	1	1	0	0	0	0	0	0
...............................................................................................................................................................................GAGTATACTAGA-----------TTCGTTG--------------------AG-GCA.....................................................................................................................................................	24	1	4.00	4	0	0	0	0	0	0	0	1	0	2	0	0	1	0	0	0	0
......................................................................................................................................................................................................TTCGTTG--------------------AG-GCAGAAGGAAGCGTTTC.......................................................................................................................................	26	1	4.00	4	0	0	1	0	0	0	0	0	0	0	1	0	2	0	0	0	0
......................................................................................................................................................................................................TTCGTTG--------------------AG-GCAGAAGGAAGCGTTT........................................................................................................................................	25	1	4.00	4	0	0	0	0	0	0	0	1	0	0	1	0	1	1	0	0	0
.................................................................................................................................................................................................................................................................................................................................TGTCCGTCTGTACGTTT--------AAAC-TCGA.........................	25	1	3.00	3	0	0	2	0	0	0	0	0	0	0	1	0	0	0	0	0	0
..........................................................................................................................................................................................A-----------TTCGTTG--------------------AG-GCAGAAGGAAGC............................................................................................................................................	22	1	3.00	3	0	0	0	0	0	0	2	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................TGATC-----------AAGATCAATAGCCGAGTCGAT...................................................................	26	1	2.00	2	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0
..........................................................................................................................................................................................A-----------TTCGTTG--------------------AG-GCAGAAGGAAGCGT..........................................................................................................................................	24	1	2.00	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
......................................................................................................................................................................................................TTCGTTG--------------------AG-GCAGAAGGAAGCGT..........................................................................................................................................	23	1	2.00	2	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................TGTACGTTT--------AAAC-TCGAGATCTCAGGA...............	27	1	2.00	2	0	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TATTTTTGATC-----------AAGATCAATAGCCGAGT.......................................................................	28	1	2.00	2	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................ATACTAGA-----------TTCGTTG--------------------AG-GCAGAAGG................................................................................................................................................	25	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................TTCGTTG--------------------AG-GCAGAAGGAAGC............................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0
..............................................................................................................................................................................AGAGTATACTAGA-----------TTCGTTG--------------------AG-GC......................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................GAGTATACTAGA-----------TTCGTTG--------------------AG-GCAGAA..................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................ATGTCCGTCTGTACGTTT--------AAAC-TCGAGAT......................	29	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................TGGCCATGTCCGTCTGTACGTTT--------AAAC-T............................	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................CGTTG--------------------AG-GCAGAAGGAAG.............................................................................................................................................	18	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................TACTAGA-----------TTCGTTG--------------------AG-GCAGAAGGA...............................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................T-AAAAGAGTATACTAGA-----------TTCGTTG--------------------AG-........................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................CGACC-------------------ATATTTTTGATC-----------AAGATCAATAGC............................................................................	29	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................TTGATC-----------AAGATCAATAGCCGAGTCGAT...................................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................AAAAGAGTATACTAGA-----------TTCGTTG--------------------AG-GC......................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................TCCGACC-------------------ATATTTTTGATC-----------AAGATCAATA..............................................................................	29	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................ATC-TGGCCATGTCCGTCTGTACGTT...........................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
........................................................................................................................................................................................AGA-----------TTCGTTG--------------------AG-GCAGAAGGAAGCGT..........................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................CGTCTGTACGTTT--------AAAC-TCGAGATC.....................	25	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................TGTCCGTCTGTACGTTT--------AAAC-TCGAGAT......................	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................T--------AAAC-TCGAGATCTCAGGAA..............	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................TGTACGTTT--------AAAC-TCGAGATCTCAGGAAT-------------	29	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................GAGTATACTAGA-----------TTCGTTG--------------------AG-GCATT...................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
.......................................................................................................................................................................................................................................................................................TC-----------AAGATCAATAGCCGAGTCGAT...................................................................	23	2	1.00	2	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................T-AAAAGAGTATACTAGA-----------TTCGTTG--------------------AG-GC......................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................TACGTTT--------AAAC-TCGAGATCTCAGG................	24	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................TTGATC-----------AAGATCAATAGCCGAGTCGATC-.................................................................	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................ACGTTT--------AAAC-TCGAGATCTCAGGAAT-------------	26	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................TGGCCATGTCCGTCTGTACGTTT--------AAAC-.............................	27	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................TTCGTTG--------------------AG-GCAGAAGGAAG.............................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................GATC-TGGCCATGTCCGTCTGTACGTT...........................................	26	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................TTTGATC-----------AAGATCAATAGCCGAGT.......................................................................	24	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................TGTACGTTT--------AAAC-TCGAGATC.....................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................TCGTTG--------------------AG-GCAGAAGGAAGCGTTT........................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................TCTGTACGTTT--------AAAC-TCGAGATC.....................	23	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TATTTTTGATC-----------AAGATCAATAGC............................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...............................................................................................................................................................................GAGTATACTAGA-----------TTCGTTG--------------------AG-GC......................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................CATGTCCGTCTGTACGTTT--------AAAC-TCGA.........................	27	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................AAC-TCGAGATCTCAGG................	16	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................................TTCGTTG--------------------AG-GCAGAAGGAAGCG...........................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................TT--------AAAC-TCGAGATCTCAGGAAT-------------	22	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................C-----------AAGATCAATAGCCGAGTCGAT...................................................................	22	3	0.33	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................TGATC-----------AAGATCAATAGCCGAGT.......................................................................	22	4	0.25	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................G--------------------AG-GCAGAAGGAAGCGTTTC.......................................................................................................................................	20	4	0.25	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...........................................................................................................................................................................AAAAGAGTATACTAGA-----------......................................................................................................................................................................................	16	19	0.21	4	0	0	0	0	0	0	1	2	0	0	1	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................GCCGAGTCGATC-TGGCCATGTCCGTC...................................................	26	20	0.20	4	0	0	0	0	0	0	0	2	0	0	2	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................C-----------AAGATCAATAGCCGAGTCGATT-.................................................................	23	16	0.19	3	0	0	0	0	0	0	0	1	0	2	0	0	0	0	0	0	0
............................................................................................................................................................................................................G--------------------AG-GCAGAAGGAAGCGTT.........................................................................................................................................	18	6	0.17	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................CGAGTCGATC-TGGCCATGTCCGTCTG.................................................	26	20	0.15	3	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................CGAGTCGATC-TGGCC............................................................	15	20	0.15	3	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................TAGCCGAGTCGATC-TGGCCATGTC.......................................................	24	20	0.15	3	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................AAGATCAATAGCCGAGTCGATT-.................................................................	22	16	0.13	2	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................CGAGTCGATC-TGGCCATGTCCGTC...................................................	24	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................CAATAGCCGAGTCGATC-TGGCCATGTC.......................................................	27	20	0.10	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................CGAGTCGATC-TGGCCATGTC.......................................................	20	20	0.10	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................ATC-----------AAGATCAATAGC............................................................................	15	14	0.07	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................CGAGATCTCAGGAAT-------------	15	15	0.07	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................GT-AAAAGAGTATACTAGA-----------TTC...................................................................................................................................................................................	21	16	0.06	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................CCGAGTCGATC-TGGCCATGTCCGTC...................................................	25	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................AAAGAGTATACTAGA-----------T.....................................................................................................................................................................................	16	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................CGAGTCGATC-TGGCCATGTCCGTCTGT................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................TAGCCGAGTCGATC-TGGCCATGTCCGTCTG.................................................	30	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................AGCCGAGTCGATC-TGGCCAT..........................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................TAGCCGAGTCGATC-TGGCCATGTCCGT....................................................	27	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................CAATAGCCGAGTCGATC-TGG..............................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................GTCGATC-TGGCCATGTCCGT....................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................GTCGATC-TGGCCATGTCCGTC...................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................AGTCGATC-TGGCCATGTCCGT....................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................AATAGCCGAGTCGATC-TGGCCATGTCC......................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................CCGAGTCGATC-TGGCCATGTC.......................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................................................................................................................................................................................................................................AG-GCAGAAGGAAGCGTTTCCGACC-------------------...............................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0

droSec2

A-----------------------------------------------------------------------------------------------------------------------------------------------------------------------GT-AAAAGAGTATACTAGA-----------TTCGTTG--------------------AG-TTAGAAGGAAGCGTTTCCGACC-------------------ATATTATTGATC-----------AAGATCAATAGCCGAGTCGATC-TGGCCGTGTCCGTCTGTCCGTTT--------AAAC-TCGA-------GAAGG-------------	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
..............................................................................................................................................................................................................................................................................................................GCCGAGTCGATC-TGGCCGTGTCCGTC...................................................	26	2	2.00	4	2	0	2	0
......................................................................................................................................................................................CTAGA-----------TTCGTTG--------------------AG-TTAGAAGGA...............................................................................................................................................	23	1	1.00	1	0	0	1	0
.......................................................................................................................................................................................................TCGTTG--------------------AG-TTAGAAGGAAGCGTT.........................................................................................................................................	23	1	1.00	1	1	0	0	0
......................................................................................................................................................................................................TTCGTTG--------------------AG-TTAGAAGGAAGCGTT.........................................................................................................................................	24	1	1.00	1	1	0	0	0
...............................................................................................................................................................................................................................................................................................................CCGAGTCGATC-TGGCCGTGTCCGTCT..................................................	26	2	0.50	1	1	0	0	0
..............................................................................................................................................................................................................................................................................................................GCCGAGTCGATC-TGGCCGTGTCCGTT...................................................	26	3	0.33	1	0	0	1	0
......................................................................................................................................................................................................................................................................................................................GATC-TGGCCGTGTCCGTCTGTCC..............................................	23	3	0.33	1	1	0	0	0
............................................................................................................................................................................AAAGAGTATACTAGA-----------TTCGTTG--------------------...........................................................................................................................................................	22	12	0.08	1	0	0	0	1
................................................................................................................................................................................................................................................................................................................................GTGTCCGTCTGTCCGTTT--------G.................................	19	17	0.06	1	0	0	1	0
..........................................................................................................................................................................................................................................................................................................AATAGCCGAGTCGATC-TG...............................................................	18	20	0.05	1	0	0	1	0

droYak3

TCT-AAATGT------TTTCGCA--------------ATGTGCTACGTATGGG-----------------------------------------------C-TTAAGTTAATGATAA-----TAATTATAATTATACCCGTTACTCGT-------A------GA----GT-AATAGGGTATACTAGA-----------TTCGTTGAAA-------AGTATGTAACAG-GCAGAAGGAAGCTTTTCCGACCAT-ATAAAGTAC-----ATATATTCTTGATC-----------AGGATCAATAGCCGAGTCGATT-TGGCCATGTCCGTTCGTCT----------------------------------------------	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
..........................................................................................................................................................................................................................ATGTAACAG-GCAGAAGGAAGCTTTTCCG.....................................................................................................................................	28	20	1.15	23	0	0	0	0	0	0	0	0	0	0	23
...................................................................................................................................................................................................................................................................................................................GTCGATT-TGGCCATGTCCGTT...................................................	21	5	0.20	1	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................AGAAGGAAGCTTTTCCGACCAT-ATAAAGT........................................................................................................................	29	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................................................TGTAACAG-GCAGAAGGAAGCTTTTCC......................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................TAACAG-GCAGAAGGAAGCTTTTCCGACC..................................................................................................................................	28	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................AG-GCAGAAGGAAGCTTTTCCGACCA.................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................TCGT-------A------GA----GT-AATAGGGTATACTAGA-----------TA....................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................TAGCCGAGTCGATT-TGGCCATGTCC......................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0

droEre2

A---------------------------------------------------------------------------------------------------------------------------------AATATACCCGTTACTCGT-------A------GA----GT-AAAAGGGTATACTAGA-----------TTCGTTTAAA-------AAGATGTAACAG-GCAGAAGAAAGCGTTTCCGACCAT-ATAAAGTATATATATTATATTCTTGATC-----------AGGATCAATAGCCGAGGCGAAC-TGGTCATGTCCGTCTGGCCTTA-------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
....................................................................................................................................................................................................................................................................................TGATC-----------AGGATCAATAGCCG..........................................................................	19	20	0.45	9	0	0	0	0	0	0	9
...........................................................................................................................................................................................................................TGTAACAG-GCAGAAGAAAGCGTT.........................................................................................................................................	23	20	0.15	3	0	0	0	0	0	0	3
................................................................................................................................................................................................................................................................................TTCTTGATC-----------AGGATCAATAGCCGAG........................................................................	25	20	0.05	1	0	0	0	0	1	0	0
...........................................................................................................................................................................AAAAGGGTATACTAGA-----------TTCGTT................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0	0

dvi_16003

scaffold_13047:8231042-8231192 -

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-29.2	-29.1	-29.1