dvi_9657

Name	Class	Family	Strand
Gypsy16-I_Dpse-int	LTR	Gypsy	+

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CAGTAGTCGAAACACCACCAGTCGCGGTCCCATCCCACCTGAGAAAGTTGGTAATATTATCCAAGGCTGGCGTGTCAAATTTGAAGGTTCCAAAGAAGGTCTCCTGACTGAAGAATTCCTCTACAGGATTCGCGCGTTAACTAAGCAGAATTTGCAAGAAGATTATAGCCTGTTATGAGACCATTTGCATCTTCTTTTTGGGGGCAAAGCAAACGACTGGTATTGGAAATTCGACCAAGCCAATCCAAGCT ************************************************..........((....................((((((..((((...((((((.((((........((.(((...((((((..((.........)).))))))...))).)).........)))).)))))).)))).)))))).....))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M047 female body	SRR060654 160x9_ovaries_total	SRR060658 140_ovaries_total	SRR060676 9xArg_ovaries_total	SRR060684 140x9_0-2h_embryos_total	SRR060675 140x9_ovaries_total	SRR060667 160_females_carcasses_total	V047 embryo	V116 male body	SRR060661 160x9_0-2h_embryos_total	SRR1106729 mixed whole adult body	M028 head
..........................................................................................................................ACAGGATTCGCGCGTTAACTA............................................................................................................	21	0	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................TCTACAGGATTCGCGCGTTA................................................................................................................	20	0	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................................................................AAGCAGAATTTGCAAGAAGAT........................................................................................	21	0	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0
........................................................................................................................CTACAGGATTCGCGCGTTAAC..............................................................................................................	21	0	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
CAGTAGTCGAAACACCACCAG......................................................................................................................................................................................................................................	21	0	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0
.....................TCGCGGTCCCATCCCACCTGA.................................................................................................................................................................................................................	21	0	2	0.50	1	0	0	0	0	0	1	0	0	0	0	0	0
................................................................................TTGAAGGGACCAAAGAAGG........................................................................................................................................................	19	2	4	0.25	1	0	0	0	0	0	0	1	0	0	0	0	0
...........................................................................CAAATTTATAGGTTCCAAGGA...........................................................................................................................................................	21	3	5	0.20	1	0	0	0	0	0	0	0	1	0	0	0	0
.................................................................................TGAAGGGACCAAAGAAGG........................................................................................................................................................	18	2	9	0.11	1	0	0	0	0	0	0	0	0	1	0	0	0
..............................................................................AATTGAAGGCTCCAAAGA...........................................................................................................................................................	18	2	15	0.07	1	0	0	0	0	0	0	0	0	0	1	0	0
....................................................................................................................................................................................................TTTGGGGGCATAGCTAAAGA...................................	20	3	19	0.05	1	1	0	0	0	0	0	0	0	0	0	0	0
.AATAGTCGAAACACC...........................................................................................................................................................................................................................................	15	1	19	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0
...................................................................................AAGGTTCCATCGCAGGTC......................................................................................................................................................	18	3	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1

GTCATCAGCTTTGTGGTGGTCAGCGCCAGGGTAGGGTGGACTCTTTCAACCATTATAATAGGTTCCGACCGCACAGTTTAAACTTCCAAGGTTTCTTCCAGAGGACTGACTTCTTAAGGAGATGTCCTAAGCGCGCAATTGATTCGTCTTAAACGTTCTTCTAATATCGGACAATACTCTGGTAAACGTAGAAGAAAAACCCCCGTTTCGTTTGCTGACCATAACCTTTAAGCTGGTTCGGTTAGGTTCGA ************************************************..........((....................((((((..((((...((((((.((((........((.(((...((((((..((.........)).))))))...))).)).........)))).)))))).)))).)))))).....))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR060658 140_ovaries_total	M047 female body	SRR060685 9xArg_0-2h_embryos_total	SRR060659 Argentina_testes_total	SRR060676 9xArg_ovaries_total	SRR1106720 embryo_8-10h	SRR060674 9x140_ovaries_total	SRR060684 140x9_0-2h_embryos_total	SRR1106728 larvae	V116 male body	SRR060669 160x9_females_carcasses_total	SRR1106713 embryo_0-2h	SRR060686 Argx9_0-2h_embryos_total
.................................................................................................................................................................................TCTGGTAAACGTAGAAGAAAA.....................................................	21	0	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................CGGACAATACTCTGGTAAACG...............................................................	21	0	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................GTTTCTTCCAGAGGACTGACT............................................................................................................................................	21	0	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0
...............GTGGTCAGCGCCAGGGTAGGGT......................................................................................................................................................................................................................	22	0	2	0.50	1	0	0	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................ATACCCCCGTTTCGT........................................	15	1	14	0.43	6	0	0	0	0	0	4	0	0	2	0	0	0	0
..............................................................................................................................................................................................................TTCGTTTGCTGACCATAACCT........................	21	0	3	0.33	1	0	0	0	0	1	0	0	0	0	0	0	0	0
...........................AGGGTAGGGTGGACTCTTTC............................................................................................................................................................................................................	20	0	4	0.25	1	0	0	0	0	0	0	0	1	0	0	0	0	0
..........................CAGGGTAGGGTGGACTCTTT.............................................................................................................................................................................................................	20	0	4	0.25	1	0	0	0	0	0	0	1	0	0	0	0	0	0
...........................AGGGTAGGGTGGTCTCTC..............................................................................................................................................................................................................	18	2	7	0.14	1	0	0	0	0	0	0	0	0	0	1	0	0	0
........................CATAGGGTAGGGTGGACT.................................................................................................................................................................................................................	18	3	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................TTCTTCGGGAGTTGTCCTAA.........................................................................................................................	20	3	11	0.09	1	0	0	0	0	0	0	0	0	0	0	1	0	0
....................................................................................................................................................................................................AACCCCCCGTTTCGT........................................	15	1	17	0.06	1	0	0	0	0	0	0	0	0	0	0	0	1	0
.........................CCAGGATAGGGTGGTCGC................................................................................................................................................................................................................	18	3	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	1

Species	Coordinate	ID	Alignment
droVir3	scaffold_12954:644188-644438 +	dvi_9657	CAGTAGTCGAAACACC---------ACCAG---------TC------GCGGTCCCATCCCACCTGAGAAAGTTGGTAATATTATCCAAGGCTGGCGTGTCAAATTTGAAGGTTCCAAAGA-AGGTCTCCTGACTGAAGAATTCCTCTACAGGATTCGCGCGTTAACTAAGCAGAATTTGCAAGAAGATTATAGCCTGTTATGAGACCATTTGCATCTTCTTTTTGGGGGCAAAGCAAACGACTGGTATTGGAAATTCGACCAAGCCAATC---------CAAGCT
droMoj3	scaffold_6347:50455-50670 -		C-----------------------------------------------------------ACCTGGGAAAGTACCCAACATTATGCAAAGTTGGCACATCAAATTTGATGGGTCCAAGAA-TTGCATGCGAACTGACGAATTTATTTATCGCGTTCGTTCTCTTACCAAACAAAATTTGAATAACGAATTTCAACTCTTATGTGACCATTTATATCTATTGTTTACGGGTAAAGCTAGTGATTGGTACTGGAAATTTCATCGTACTCACT---------CCAACT
droGri2	scaffold_10129:903-1118 -		C-----------------------------------------------------------ACCTGAAAAAGTTTTAAACATAATGCAAAATTGGCGCGTTAAATTCGATGGTTCGAAAAA-CGGTATGAGAACTGAAGAGTTTATTTATCGTATCCAGGCACTTACCAGACAGAACCTTAACAATGATCTCAAACTTCTCTGCGACCACCTCTATCTACTGTTAAGTGGTAAGGCGAACGATTGGTACTGGAAATTTCACCGCACATACT---------CAGATT
droWil2	scf2_1100000002326:1660-1929 +		TAGTAGTCAGACT-CA--GAACTCAAATAGAGGGTCGCGAGC---AAATTCGACATTGTCACCCGAAAAAGTAGCAAGCATTATGCAAAGTTGGCGAATAAAATTTGATGGTTCCAAAAAAAGGAATGCATTCGGATGATTTCCTATACAGAGTTCGTTCATTAGCAGAACAAAATTTAAATGAAGATTATCAAGTACTTTGTGATCATTTGTATTTACTGTTCGCAGGTAAAGCGAATGATTGGTTTTGGAAATTTCATCGAGTACACC---------CAAATT
dp5	Unknown_group_348:32795-33043 +		GGAATACTAGCA--------------ATCG---------CTC---TTCAGTTTCAATTTCACCAGAAAAGGTAGGACATGTTATTCAAAACTGGAAGGTAAAGTTTGACGGTAGTAAGGA-CGGTCTATCGGCCACAGAATTTATTTACCGGGTACGTTCCTTGACGGCACAGACCCTGGGAAACAATTTCCAGCTGGTTTGCGATCATTTGCACTTATTGTTATCCGCAAAAGCAGGTGATTGGTTCTGGCAGTTCCATCGTAAACATG---------AAGAGT
droPer2	scaffold_913:4715-4963 -		GGAATACTAGCA--------------ATCG---------CTC---TTCAGTTTCAATTTCACCAGAAAAGGTAGGACATGTTATTCAAAACTGGAAGGTAAAGTTTGACGGTAGTAAGGA-CGGTCTATCGGCCACAGAATTTATTTACCGGGTACGTTCCTTGACGGCACAGACTCTGGGAAACAATTTCCAGCTGGTTTGCGATCATTTGCACTTATTGTTATCCGCAAAAGCAGGTGATTGGTTCTGGCAGTTCCATCGTACACATG---------AAGAGT
droAna3	scaffold_13417:6870091-6870332 -		AGT------------A---------GGCAG---------ATT---CTTTTCGGCAGTCCAGCCTGAGAAAGTACCAAGTATCATTCAGAGTTGACACATTAAGTTCGATGGTACGAAGGA-GGGATTGCAAGCCGAAGAATTTCTATATCGAGTAGAAGCCTTAGCTAAGCAGAATCTCAGCGGCGATATACAGCTTTTGTGTGATCATTTACACCTATTCTTTATAGGGAAAGCAGGTGAATAGTAATGGAATTTCCACCGGTCATTCC---------AACGTT
droBip1	scf7180000393682:1747-2009 +		CAGCCACCAATACGGCCAACAATTATGCAG---------ATC---CTGTTCGGCATTCCAGCCCGCGAAAGTACCAAGCATCATCCAGAGTTGGCACATTAAGTTCGACGGTACGAAGGA-GGGTTTGCAAGCCGAAGAATTTCTTTACCGAGTTGAAGCATTAGCTAAGCAGAATCTCAGCGGAGATAAACAGCATTTGTGTGATCATTTACACCTATTCTTTATAGGCAAAGCAGGGGAATGGTTCTGGAATTTTCATCGTTCCTACC---------AACAGT
droKik1	scf7180000301879:5445-5698 -		ATCTAGTCGACACTCT---------GAGAG---------GTC---GCACACTTCGGTGCAGCCGGAGAAGGTGCCCGGTATTATTCAGAGTTGGCACATCAAATTTGATAGAGCCAAAGA-TGGTTTGCAGACAGAGGATTTTCTGTACAGAGTACAAGCACTAGCCCAACAGAATTTAAACGGAGATCATCAGCTTCTTTGTGATCACCTACATCTGTTCTTTACCGGCAAAACGAATGAGTGGTATTGGAAATTCCACCAAGCATGTA---------CGAATT
droFic1	scf7180000453641:4455-4665 -		C------------------------------------------------------------CCAGAAAAGGTGTC-AGGATTATTCAAAAATGGGGATTAAAGTTTGACGGCAGCAAAAC-CAGCCTCAGGATGGACGAGTTT-TTGACAGGATAGGCTCACTTACCAAACAGAATCTAGGTAATGATTATGCTTTACTGTGTGACCATTTGTATCTTTTGTTT--CGGGAAAGCCAGTGATTGGTATTGGAAATTCCATCGCAACAATC---------CAAATT
droEle1	scf7180000490342:7359-7609 +		GAATACTCAGCGTGTC---------GATAG---------GTC---AATTTCTTCGATTCAGCCAGATAAGGTGCCGAATATTATTCAGAGCTGGCACATCAAGTTTGATAGATCCAAGGA-AGGTTTACAGGCTGAGGAATTTCTTTATCGAGTGCATGCATTAGCTAGACAGAATTTAAATGGAGATCGTCAAC---TGTGCGATAATTTGCATTTATTTTTCGTCGGCAAGGCTAGTGAATGGTACTGGAGATTTCACCGGACGTATC---------ATCAAT
droRho1	scf7180000780270:13452-13702 -		AAATACTCAGGGCGTC---------GATAG---------ATC---GCTTTCTTCGATACGGCCAGATAAGGTGCCGAATATTATTCAAAGCTGGCACATCAAGTTTGATGGATCCAAGGA-GAGTTTACAGGCTGAGGAATTTCTTTATCGAGTACAAGCATTGGCTCGACAGAATTTAAATGGAGATCGTCAACT---TTGCGATAACTTACATTTATTTTTCGTCGGCAAGGCTAGTGAATGGTACTGGAGATTTCACCGAATGTATC---------GTCAAT
droBia1	scf7180000301366:45653-45875 -		A------------------------------------------------------------CCTGAAAAGGTTTCAAGTAGTATTCAAAA-TGTGGTATAAAGTTCGATGGTAGCAAAAC-AAGCATTAGGGTGAACGAATTTCTTTATAGGGTGTGTTCTCTTACCAAACAAAATCTGGGGAATGATTTTCAACTTGTTTGTGATCGTTTACAGTTTCTCTTTACGGGAAGAGCTAGCGATTGCTATTGGAAATTCCATAGTCCGAACTTTGGCTGGCCAAATT
droTak1	scf7180000410802:8986-9240 +		CGCGTAGCAACA--CA---------AGCAG---------TTCGGGACACGCTTTGATCACACCTGAAAAAGTCGCGAATATCATGCAAAGTTGGCGTATAAAATTTGAAGGCTCTAAAGA-CGGTCTGCAAACCGAAGAATTCTTATATAGGATTTGCGCACTAACAAAGCAAAATCTACACAGCAATTACAATCTTGTGTGTGACCACTTACATTTACTCTTCGGAGGTAAAGCCAGTGAGTGGTACTGGAAATTTCACCAGACAAATC---------CCGGTT
droEug1	scf7180000409717:7430-7683 -		AAACACTCAGCGCGTC---------GATAG---------ATC---AAGTTCTATAGTTCAGCCAGAAAAGGTGCCGAGCATCATTCAGAGCTGGCACATCAAGTTTGATGGATCTAAGGA-CGGGTTACAGACCGAAGAGTTCCTTTATCGCATACAGGCATTAGCACGGCAAAATTTAAATGGGAATCATAAGCTTCTGTGTGACCATCTTCATTTATTTTTCGTTGGCAAAGCGAGCGAATGGTACTGGAAATTCCACCGTTCGTTTC---------CTCAGT
dm3	chrU:6579023-6579217 -		C-------------------------------------------------------------CGGACAAAGTGCCAAGCATAATCTAGAGTTGGCGAGATAAAT-----AGCGCTCGAGA-T--------GGCCGAAGAATTCCTTTACCGTGT------GTTAGCCCAACAAAACCTAAACGGGGACCGACAGATCCAGTGTAACCACTTACACTTATTCTTTAATGGTAAAGCCAATGAATGGTATTGGAAGTTCCATTGTACAAATC---------CAAACT
droSim2	2l:20844679-20844892 -		C-------------------------------------------------------------CGGACAAAGTACCAAGCATAATCCAGAGTTGGCGAATTAAATTCGATGGCGAACGAAA-TTGCCTGCAGAGCGAAGAATTCCTTTACCGTGTGTTATCCCTAGCCCAACAAAACCTAAACGGGGAGAGACAGATCCTGTGTGACCACTTACACTTATTCTTTAATGGGAAATCCAATGAATGGTATTGAAAGTTCCATCGTACAAATC---------CAAACT
droSec2	scaffold_81:4740-4948 +		C-------------------------------------------------------------CAGATAAAGTCGTCCACATATTAAATGGTTGGAAAATAAAATATTCTGGTGT-------AGGAGTGTCAGTGGACAACTTTATATACAGAGTCGAAGCGCTTACAAGGCAGACGTTGAATGGAAATTTCAACTTGTTATGTAGGAACATATGTGTATTGTTTGAAGGCAAGGCTAACGACTTCTTTTGGCGCTATCATAAAGCCAACGG--------TGAAAT
droYak3	v2_chrX_random_049:85238-85491 +		CCCTAGTCAGCATTCA---------GACAG---------ATC---TCACACGTCCGTACAACCAGAGAAAGTTCCTAATATTATCCAGAGTTGGCACCTAAAATTTGATGGGGCGAAGGA-TGGATTGCAAACCGAAGATTTTCTATACAGAGTACAAGCTCTAGCACATCAGAATTTGAATGGCGATCACCAACTACTATGTGATCATTTGCATCTCTTTTTCATAGGCAAAGCGAACGAGTGGTATTGGAAATTCCACCGATCATGCC---------GACAGT
droEre2	scaffold_1623:5827-6080 +		AAGAGGTGGAAACAGG---------AGCAA---------TGC---AAGCTCATATGTTAGCCCGGAAAAAGTATCAGGAATCATTCAAAAATGGGGATTAAAGTTCGACGGTAGCAAAAC-AAGCATCAGGATAGATGAATTCATTTACAGGATATGCTCACTCACCAAACAAAATCTAGGTAATGATTATGGACTTTTATGTGACCATTTGTACCTTCTGTTTGCAGGAAAAGCAAGCGATTGGTATTGGAAGTTTCATCGAAACAATC---------CAAATT

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droVir3

CAGTAGTCGAAACACC---------ACCAG---------TC------GCGGTCCCATCCCACCTGAGAAAGTTGGTAATATTATCCAAGGCTGGCGTGTCAAATTTGAAGGTTCCAAAGA-AGGTCTCCTGACTGAAGAATTCCTCTACAGGATTCGCGCGTTAACTAAGCAGAATTTGCAAGAAGATTATAGCCTGTTATGAGACCATTTGCATCTTCTTTTTGGGGGCAAAGCAAACGACTGGTATTGGAAATTCGACCAAGCCAATC---------CAAGCT	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
...................................................................................................................................................ACAGGATTCGCGCGTTAACTA.....................................................................................................................	21	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
................................................................................................................................................TCTACAGGATTCGCGCGTTA.........................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................AAGCAGAATTTGCAAGAAGAT.................................................................................................	21	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
.................................................................................................................................................CTACAGGATTCGCGCGTTAAC.......................................................................................................................	21	1	1.00	1	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
CAGTAGTCGAAACACC---------ACCAG---------......................................................................................................................................................................................................................................................	21	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	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
.......................................TC------GCGGTCCCATCCCACCTGA...........................................................................................................................................................................................................................	21	2	0.50	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

droMoj3

C-----------------------------------------------------------ACCTGGGAAAGTACCCAACATTATGCAAAGTTGGCACATCAAATTTGATGGGTCCAAGAA-TTGCATGCGAACTGACGAATTTATTTATCGCGTTCGTTCTCTTACCAAACAAAATTTGAATAACGAATTTCAACTCTTATGTGACCATTTATATCTATTGTTTACGGGTAAAGCTAGTGATTGGTACTGGAAATTTCATCGTACTCACT---------CCAACT	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.......................................................................................................................................................................................................................CTATTGTTTACGGGTAAAGCTAGTGA............................................	26	4	0.75	3	3	0	0	0	0	0
.......................................................................................................................................................................................................................CTATTGTTTACGGGTAAAGCTAG...............................................	23	4	0.75	3	3	0	0	0	0	0
.............................................................................................................................................................................................................................TTTACGGGTAAAGCTAGTGATTGGTAC.....................................	27	4	0.50	2	0	0	0	0	0	2
.......................................................................................................................................................................................................................CTATTGTTTACGGGTAAAGCTAGT..............................................	24	4	0.50	2	2	0	0	0	0	0
...................................................................................................................................................................................................TCTTATGTGACCATTTATATCTATTGT...............................................................	27	3	0.33	1	1	0	0	0	0	0
..................................................................................................................................AACTGACGAATTTATTTATCGCGT...................................................................................................................................	24	3	0.33	1	0	0	0	0	1	0
...................................................................................................................................................................................................TCTTATGTGACCATTTATATCTATTGTC..............................................................	28	3	0.33	1	1	0	0	0	0	0
....................................................................................................................AGAA-TTGCATGCGAACTGACG...................................................................................................................................................	21	3	0.33	1	1	0	0	0	0	0
..............................................................................................................................................................................................TCAACTCTTATGTGACCATTTATA.......................................................................	24	3	0.33	1	1	0	0	0	0	0
...................................................................................................................AAGAA-TTGCATGCGAACTGACGAAT................................................................................................................................................	25	3	0.33	1	1	0	0	0	0	0
................................................................................................................TCCAAGAA-TTGCATGCGAACTGACGAAT................................................................................................................................................	28	3	0.33	1	1	0	0	0	0	0
.........................................................................................................................TTGCATGCGAACTGACGAATTTATTC..........................................................................................................................................	26	3	0.33	1	1	0	0	0	0	0
...................................................................................................................AAGAA-TTGCATGCGAACTGACGA..................................................................................................................................................	23	3	0.33	1	1	0	0	0	0	0
..............................................................................................................................................................................................................................TTACGGGTAAAGCTAGTGATTGGTAC.....................................	26	4	0.25	1	0	0	0	0	0	1
........................................................................................................................................................................................................................TATTGTTTACGGGTAAAGCTAGTGATC..........................................	27	4	0.25	1	1	0	0	0	0	0
..........................................................................................................GATGGGTCCAAGAA-TTGCATG.............................................................................................................................................................	21	4	0.25	1	0	0	0	0	0	1
...............................................................................................................................................................................................................................TACGGGTAAAGCTAGTGATTGGTAC.....................................	25	4	0.25	1	0	0	0	0	0	1
......................................................................................................................................................................................................................TCTATTGTTTACGGGTAAAGCTA................................................	23	4	0.25	1	1	0	0	0	0	0
.......................................................................................................................................................................................................................CTATTGTTTACGGGTAAAGCTA................................................	22	4	0.25	1	1	0	0	0	0	0
..................................................................................................................................................................TTACCAAACAAAATTTGAATAACGAATT...............................................................................................	28	5	0.20	1	1	0	0	0	0	0
................................................................................................................................................................TCTTACCAAACAAAATTTGAATAACGAAA................................................................................................	29	5	0.20	1	1	0	0	0	0	0
.............................................................................ACATTATGCAAAGTTGGCACATCAAATT....................................................................................................................................................................................	28	5	0.20	1	1	0	0	0	0	0

droGri2

C-----------------------------------------------------------ACCTGAAAAAGTTTTAAACATAATGCAAAATTGGCGCGTTAAATTCGATGGTTCGAAAAA-CGGTATGAGAACTGAAGAGTTTATTTATCGTATCCAGGCACTTACCAGACAGAACCTTAACAATGATCTCAAACTTCTCTGCGACCACCTCTATCTACTGTTAAGTGGTAAGGCGAACGATTGGTACTGGAAATTTCACCGCACATACT---------CAGATT	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droWil2

TAGTAGTCAGACT-CA--GAACTCAAATAGAGGGTCGCGAGC---AAATTCGACATTGTCACCCGAAAAAGTAGCAAGCATTATGCAAAGTTGGCGAATAAAATTTGATGGTTCCAAAAAAAGGAATGCATTCGGATGATTTCCTATACAGAGTTCGTTCATTAGCAGAACAAAATTTAAATGAAGATTATCAAGTACTTTGTGATCATTTGTATTTACTGTTCGCAGGTAAAGCGAATGATTGGTTTTGGAAATTTCATCGAGTACACC---------CAAATT	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.......................................................................................AAGTTGGCGAATAAAATTTGATGG..............................................................................................................................................................................	24	20	0.10	2	0	2	0	0	0
..................................................................................ATGCAAAGTTGGCGAATAAAATTTG..................................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
........................................................................................AGTTGGCGAATAAAATTTGATGG..............................................................................................................................................................................	23	20	0.05	1	0	0	0	1	0
...............................................................CGAAAAAGTAGCAAGCATTATGCAAAGT..................................................................................................................................................................................................	28	20	0.05	1	0	1	0	0	0
..................................................................................................................................................................TAGCAGAACAAAATTTAAATGAAGAT.................................................................................................	26	20	0.05	1	0	0	0	1	0
..........................ATAGAGGGTCGCGAGC---AAATTCGAC.......................................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
..........................ATAGAGGGTCGCGAGC---AAATTCGACAT.....................................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0
..............CA--GAACTCAAATAGAGGGTCGCG......................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
.................................................TCGACATTGTCACCCGAAAAAGTAGCA.................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0
.................................................................................................................................................................................................................................CAGGTAAAGCGAATGATT..........................................	18	20	0.05	1	0	0	0	0	1

dp5

GGAATACTAGCA--------------ATCG---------CTC---TTCAGTTTCAATTTCACCAGAAAAGGTAGGACATGTTATTCAAAACTGGAAGGTAAAGTTTGACGGTAGTAAGGA-CGGTCTATCGGCCACAGAATTTATTTACCGGGTACGTTCCTTGACGGCACAGACCCTGGGAAACAATTTCCAGCTGGTTTGCGATCATTTGCACTTATTGTTATCCGCAAAAGCAGGTGATTGGTTCTGGCAGTTCCATCGTAAACATG---------AAGAGT	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
.........................................................................GGACATGTTATTCAAAACTGGAAGG...........................................................................................................................................................................................	25	3	10.33	31	0	25	0	0	0	0	1	0	5	0
..................................................................................................TAAAGTTTGACGGTAGTAAGGA-CGGT................................................................................................................................................................	26	3	9.67	29	0	1	0	0	0	0	0	1	27	0
..................................................................................................TAAAGTTTGACGGTAGTAAGGA-CGG.................................................................................................................................................................	25	3	9.33	28	0	0	0	0	0	0	0	5	23	0
...................................................................................................AAAGTTTGACGGTAGTAAGGA-CGG.................................................................................................................................................................	24	3	8.67	26	0	0	0	0	0	0	0	4	22	0
..................................................................................................TAAAGTTTGACGGTAGTAAGGA-CGGTC...............................................................................................................................................................	27	3	8.33	25	0	0	0	0	0	0	0	3	22	0
.........................................................................GGACATGTTATTCAAAACTGGAAG............................................................................................................................................................................................	24	3	6.33	19	0	15	0	0	0	0	0	0	4	0
...................................................................................................AAAGTTTGACGGTAGTAAGGA-CGGT................................................................................................................................................................	25	3	5.00	15	0	1	0	0	0	0	0	0	14	0
...................................................................................................................................................................................................................GCACTTATTGTTATCCGCAAAAGCAGG...............................................	27	3	4.67	14	0	13	0	0	0	0	0	1	0	0
...............................................................................................................TAGTAAGGA-CGGTCTATCGGC........................................................................................................................................................	21	3	3.67	11	0	0	0	0	0	0	0	7	4	0
...................................................................................................AAAGTTTGACGGTAGTAAGGA-CGGTC...............................................................................................................................................................	26	3	3.33	10	0	0	0	0	0	0	0	1	9	0
.........................................................................................................TGACGGTAGTAAGGA-CGGTCTATCGGC........................................................................................................................................................	27	3	2.00	6	0	2	0	0	0	0	0	1	3	0
.........................................................................GGACATGTTATTCAAAACTGGAAGGT..........................................................................................................................................................................................	26	3	1.67	5	0	4	0	0	0	0	0	1	0	0
................................................................................................................AGTAAGGA-CGGTCTATCGGC........................................................................................................................................................	20	3	1.33	4	0	1	0	0	0	0	0	2	1	0
....................................................................................................................................................................................................................CACTTATTGTTATCCGCAAAAGCAGG...............................................	26	3	1.33	4	0	4	0	0	0	0	0	0	0	0
..AATACTAGCA--------------ATCG---------CTC---TTCAGT..........................................................................................................................................................................................................................................	23	3	1.33	4	0	4	0	0	0	0	0	0	0	0
..................................................................................................TAAAGTTTGACGGTAGTAAGGA-CG..................................................................................................................................................................	24	3	1.33	4	0	0	0	0	0	0	0	2	2	0
.............................................................................................................................................TTATTTACCGGGTACGTTCCTTGACGG.....................................................................................................................	27	3	1.00	3	0	0	0	0	0	0	0	3	0	0
....................................................................................................AAGTTTGACGGTAGTAAGGA-CG..................................................................................................................................................................	22	3	1.00	3	0	0	0	0	0	0	0	3	0	0
..AATACTAGCA--------------ATCG---------CTC---TTCAGTT.........................................................................................................................................................................................................................................	24	3	1.00	3	0	3	0	0	0	0	0	0	0	0
.............................................................................................................................................TTATTTACCGGGTACGTTCCTTGACGGC....................................................................................................................	28	3	1.00	3	0	0	0	0	0	0	0	0	3	0
.................................................................................................................................................TTACCGGGTACGTTCCTTGACGGC....................................................................................................................	24	3	1.00	3	0	1	0	0	0	0	0	2	0	0
...............................................................................................................TAGTAAGGA-CGGTCTATCGG.........................................................................................................................................................	20	3	1.00	3	0	3	0	0	0	0	0	0	0	0
.........................................................................GGACATGTTATTCAAAACTGG...............................................................................................................................................................................................	21	3	1.00	3	0	3	0	0	0	0	0	0	0	0
..................................................................................................................................................TACCGGGTACGTTCCTTGACGGCAC..................................................................................................................	25	3	1.00	3	0	1	0	0	0	0	0	0	2	0
..............................................................................................................................................................................................................................................TGATTGGTTCTGGCAGTTCCATC........................	23	2	1.00	2	0	1	0	0	0	0	0	0	1	0
.................................................................................................................................................TTACCGGGTACGTTCCTTGACGGCA...................................................................................................................	25	3	0.67	2	0	1	0	0	0	0	0	0	1	0
....................................................................................TCAAAACTGGAAGGTAAAGTTTGACGG..............................................................................................................................................................................	27	3	0.67	2	0	0	0	0	0	0	0	2	0	0
.............................................................................................GAAGGTAAAGTTTGACGGTAGTAAG.......................................................................................................................................................................	25	3	0.67	2	0	0	0	0	0	0	0	0	2	0
....................................................................................................................................CCACAGAATTTATTTACCGGGTACGT...............................................................................................................................	26	3	0.67	2	0	1	0	0	0	0	1	0	0	0
...................................................................................TTCAAAACTGGAAGGTAAAG......................................................................................................................................................................................	20	3	0.67	2	0	0	0	0	0	0	0	2	0	0
..........................................................TCACCAGAAAAGGTAGGACATGTTATA........................................................................................................................................................................................................	27	3	0.67	2	0	0	0	0	0	0	0	2	0	0
............................................................................................GGAAGGTAAAGTTTGACGGTAGT..........................................................................................................................................................................	23	3	0.67	2	0	0	0	0	0	0	0	2	0	0
.........................................................................................................TGACGGTAGTAAGGA-CGGTCTATCG..........................................................................................................................................................	25	3	0.67	2	0	1	0	0	0	0	0	0	1	0
........................................................................................................TTGACGGTAGTAAGGA-CGGT................................................................................................................................................................	20	3	0.67	2	0	0	1	0	0	0	0	0	1	0
.................................................................................................................................................TTACCGGGTACGTTCCTTGACG......................................................................................................................	22	3	0.67	2	0	2	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................TGGCAGTTCCATCGTAAACATG---------AAGAG.	27	3	0.67	2	0	2	0	0	0	0	0	0	0	0
..........................................................................GACATGTTATTCAAAACTGGAAGG...........................................................................................................................................................................................	24	3	0.67	2	0	2	0	0	0	0	0	0	0	0
.........................................................................GGACATGTTATTCAAAACTGGAA.............................................................................................................................................................................................	23	3	0.67	2	0	2	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................GCACTTATTGTTATCCGCAAAAGC..................................................	24	3	0.67	2	0	2	0	0	0	0	0	0	0	0
.................................................................................................................................................TTACCGGGTACGTTCCTTGACGG.....................................................................................................................	23	3	0.67	2	0	2	0	0	0	0	0	0	0	0
..................................................................................................TAAAGTTTGACGGTAGTAAGG......................................................................................................................................................................	21	3	0.67	2	0	1	0	0	0	0	0	0	1	0
...........................................................................................TGGAAGGTAAAGTTTGACGGTA............................................................................................................................................................................	22	3	0.67	2	0	0	0	0	0	0	0	2	0	0
.................................................................................................................................................................................................................................................TTGGTTCTGGCAGTT.............................	15	3	0.67	2	0	0	0	0	0	0	0	1	1	0
..................................................................................................................................................................................................................................CGCAAAAGCAGGTGATTGGTTCTGG..................................	25	2	0.50	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................CTTATTGTTATCCGCAAAAGCAG................................................	23	4	0.50	2	0	0	0	0	0	0	0	2	0	0
....................................................................................................................................................................................................................CACTTATTGTTATCCGCAAAAGCAGGC..............................................	27	4	0.50	2	0	2	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................CGCAAAAGCAGGTGATTGGTTCT....................................	23	2	0.50	1	0	0	0	0	0	0	1	0	0	0
.................................................................................................................................................................................................................................CCGCAAAAGCAGGTGATTGGT.......................................	21	2	0.50	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................CAAAAGCAGGTGATTGGTTCT....................................	21	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................TGATTGGTTCTGGCAGTTCCATCG.......................	24	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................CACAGAATTTATTTACCGGGTACGT...............................................................................................................................	25	3	0.33	1	0	0	0	0	0	0	1	0	0	0
................................................................................................................AGTAAGGA-CGGTCTATCGGCCACA....................................................................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................TGGGAAACAATTTCCAGCTGGTTTG...................................................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................GGTTCTGGCAGTTCCATCGTAAA...................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................ACAATTTCCAGCTGGTTTGCGATCATT...........................................................................	27	3	0.33	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................GTTATCCGCAAAAGCAGG...............................................	18	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................TGGTTCTGGCAGTTCCATCGTAAACAA................	27	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................TGGGAAACAATTTCCAGCTGGTT.....................................................................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................TTACCGGGTACGTTCCTTGACGGT....................................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................TTTCCAGCTGGTTTGCGATCATT...........................................................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................TTTGCACTTATTGTTATCCGCAAAA....................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................TACCGGGTACGTTCCTTGACGG.....................................................................................................................	22	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................TATCGGCCACAGAATTTATTTACC.......................................................................................................................................	24	3	0.33	1	0	0	0	0	0	0	0	0	1	0
....................................................TCAATTTCACCAGAAAAGGTAGGACA...............................................................................................................................................................................................................	26	3	0.33	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................ACGGTAGTAAGGA-CGGTCTATCGGC........................................................................................................................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................GGCAGTTCCATCGTAAACATG---------AAGAGT	27	3	0.33	1	0	0	0	0	0	0	1	0	0	0
...................................................................AAGGTAGGACATGTTATTCAA.....................................................................................................................................................................................................	21	3	0.33	1	0	0	0	0	0	0	0	1	0	0
................................................................................................................................TCGGCCACAGAATTTATTTACCGGG....................................................................................................................................	25	3	0.33	1	0	0	0	0	0	0	0	0	1	0
..................................................................................................................TAAGGA-CGGTCTATCGGCCACAGA..................................................................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................TGGCAGTTCCATCGTAAACATG---------AAGAGT	28	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................TTGGTTCTGGCAGTTCCATCGTAAACA.................	27	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................TTATTGTTATCCGCAAAAGCAGG...............................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................TAAAGTTTGACGGTAGTAAGGA-CGGTCT..............................................................................................................................................................	28	3	0.33	1	0	0	0	0	0	0	0	0	1	0
GGAATACTAGCA--------------ATCG---------CTC---TT..............................................................................................................................................................................................................................................	21	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................GGACATGTTATTCAAAACTGGA..............................................................................................................................................................................................	22	3	0.33	1	0	0	0	0	0	0	0	0	1	0
..............................................................................................................................................................TCCTTGACGGCACAGACCCTGGG........................................................................................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................TTTACCGGGTACGTTCCTTGACGG.....................................................................................................................	24	3	0.33	1	0	0	0	0	0	0	0	0	1	0
........................................................................AGGACATGTTATTCAAAACTGGA..............................................................................................................................................................................................	23	3	0.33	1	0	0	0	0	0	0	0	0	1	0
......................................................................................................................................ACAGAATTTATTTACCGGGTACG................................................................................................................................	23	3	0.33	1	0	0	0	0	0	0	0	0	1	0
........................................................................................................TTGACGGTAGTAAGGA-CGG.................................................................................................................................................................	19	3	0.33	1	0	0	0	0	0	0	0	1	0	0
.........................................................................................................TGACGGTAGTAAGGA-CGGTC...............................................................................................................................................................	20	3	0.33	1	0	0	0	0	0	0	0	0	1	0
...............................................................................................................TAGTAAGGA-CGGTCTATCGGCCAC.....................................................................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................TATCGGCCACAGAATTTATTTACCGGG....................................................................................................................................	27	3	0.33	1	0	0	0	0	0	0	0	1	0	0
....................................................................................................................................................................................................................................................GTTCTGGCAGTTCCATCGTAAACAT................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.................................................................................TATTCAAAACTGGAAGGTAAAGTT....................................................................................................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................TCCTTGACGGCACAGACCCTGG.........................................................................................................	22	3	0.33	1	0	1	0	0	0	0	0	0	0	0
................................................................................TTATTCAAAACTGGAAGG...........................................................................................................................................................................................	18	3	0.33	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................TATTGTTATCCGCAAAAGCAGG...............................................	22	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................GACGGTAGTAAGGA-CGGTCTATC...........................................................................................................................................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................TGACGGTAGTAAGGA-CGGTCTATCGG.........................................................................................................................................................	26	3	0.33	1	0	0	0	0	0	0	0	0	1	0
........................................................................................................................................................GTACGTTCCTTGACGGCACAGACC.............................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................TTCTGGCAGTTCCATCGTAAAC..................	22	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................TGACGGTAGTAAGGA-CGGTCTATCGA.........................................................................................................................................................	26	3	0.33	1	0	0	0	0	0	0	0	1	0	0
.................................................................................................................................................................................................................................................TTGGTTCTGGCAGTTCCATCGT......................	22	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................GGA-CGGTCTATCGGCCACAGAATT...............................................................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................TTCCTTGACGGCACAGACCCTGGG........................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................TACGTTCCTTGACGGCACAGACCC............................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..........................................................................GACATGTTATTCAAAACTGGAAG............................................................................................................................................................................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................TGGAAGGTAAAGTTTGACGGTAG...........................................................................................................................................................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................GGACATGTTATTCAAAACTGGAAA............................................................................................................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................TTATTTACCGGGTACGTTCCTTGACG......................................................................................................................	26	3	0.33	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................ACAGAATTTATTTACCGGGTACGT...............................................................................................................................	24	3	0.33	1	0	0	0	0	0	0	1	0	0	0
.....................................................................................................................................................................................................................ACTTATTGTTATCCGCAAAAGCAGG...............................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..........................................................TCACCAGAAAAGGTAGGACATGTTA..........................................................................................................................................................................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................TTTGACGGTAGTAAGGA-CGGTC...............................................................................................................................................................	22	3	0.33	1	0	0	0	0	0	0	0	0	1	0
.........................................................................................................................................................................................................................................................GGCAGTTCCATCGTAAACATG---------AAGAG.	26	3	0.33	1	0	0	0	0	0	0	1	0	0	0
.......................................................................................................................................................................................................................................................CTGGCAGTTCCATCGTAAACATG---------AAGAG.	28	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................GGACATGTTATTCAAAACTGGAAGGTA.........................................................................................................................................................................................	27	3	0.33	1	0	0	0	0	0	0	0	1	0	0
..............................................................................................................................................TATTTACCGGGTACGTTCCTTGACGGCAC..................................................................................................................	29	3	0.33	1	0	0	0	0	0	0	0	0	1	0
.................................................................................................................................................................................TGGGAAACAATTTCCAGCTGGTA.....................................................................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................GGACATGTTATTCAAAACTGGAAGA...........................................................................................................................................................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................TGCACTTATTGTTATCCGCAAAAGCAGG...............................................	28	3	0.33	1	0	0	0	0	0	0	0	0	1	0
...............................................................................................................................................ATTTACCGGGTACGTTCCTTGACG......................................................................................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................AAGTTTGACGGTAGTAAGGA-CGGTC...............................................................................................................................................................	25	3	0.33	1	0	0	0	0	0	0	0	0	1	0
...................................................................................................................AAGGA-CGGTCTATCGGCCACAGA..................................................................................................................................................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................TGCGATCATTTGCACTTATTGTTATCCAA........................................................	29	3	0.33	1	0	0	0	0	0	0	0	0	1	0
..................................................................................................TAAAGTTTGACGGTAGTAAGGA-C...................................................................................................................................................................	23	3	0.33	1	0	0	0	0	0	0	0	0	1	0
.......................................................................................................TTTGACGGTAGTAAGGA-CGG.................................................................................................................................................................	20	3	0.33	1	0	0	0	0	0	0	0	0	1	0
......................................................................................................................................................................................................................................................TCTGGCAGTTCCATCGTAAACAT................	23	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................TGACGGTAGTAAGGA-CGGTCTATCGGCC.......................................................................................................................................................	28	3	0.33	1	0	0	0	0	0	0	0	1	0	0
.................................................................................................................................................................................................................TTGCACTTATTGTTATCCGCAAAA....................................................	24	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................TTGCACTTATTGTTATCCGCAAAAG...................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
................................................................................TTATTCAAAACTGGAAGGT..........................................................................................................................................................................................	19	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................TGGTTCTGGCAGTTCCATCGTAAAC..................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................TACGTTCCTTGACGGCACAGACA.............................................................................................................	23	3	0.33	1	0	0	0	0	0	0	0	1	0	0
..................................................................................................................................................................TGACGGCACAGACCCTGGGAA......................................................................................................	21	4	0.25	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................TTATTGTTATCCGCAAAAGC..................................................	20	4	0.25	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................CTTATTGTTATCCGCAAAAGCAGGC..............................................	25	4	0.25	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................GACGGCACAGACCCTGGGAA......................................................................................................	20	4	0.25	1	0	1	0	0	0	0	0	0	0	0

droPer2

GGAATACTAGCA--------------ATCG---------CTC---TTCAGTTTCAATTTCACCAGAAAAGGTAGGACATGTTATTCAAAACTGGAAGGTAAAGTTTGACGGTAGTAAGGA-CGGTCTATCGGCCACAGAATTTATTTACCGGGTACGTTCCTTGACGGCACAGACTCTGGGAAACAATTTCCAGCTGGTTTGCGATCATTTGCACTTATTGTTATCCGCAAAAGCAGGTGATTGGTTCTGGCAGTTCCATCGTACACATG---------AAGAGT	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
........................................................TTTCACCAGAAAAGGTAGGACATGT............................................................................................................................................................................................................	25	20	0.40	8	0	6	0	0	0	2
.............................................................................................................................................TTATTTACCGGGTACGTTCCTTGACG......................................................................................................................	26	20	0.10	2	0	1	0	0	0	1
.............................................................................................................................................TTATTTACCGGGTACGTTCCTTGA........................................................................................................................	24	20	0.10	2	0	2	0	0	0	0
.............................................................................................................................................TTATTTACCGGGTACGTTCCTTG.........................................................................................................................	23	20	0.10	2	0	1	0	0	0	1
..............................................................................................................................................TATTTACCGGGTACGTTCCTTGACGG.....................................................................................................................	26	19	0.05	1	0	1	0	0	0	0
.............................................................................................................................................TTATTTACCGGGTACGTTCCTTGACGG.....................................................................................................................	27	19	0.05	1	0	1	0	0	0	0
...............................................................................................................TAGTAAGGA-CGGTCTATCGGCCACAGA..................................................................................................................................................	27	20	0.05	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................TGTTATCCGCAAAAGCAGGTGATTGGT.......................................	27	20	0.05	1	0	1	0	0	0	0
...........................................................................................TGGAAGGTAAAGTTTGACGG..............................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
.......TAGCA--------------ATCG---------CTC---TTCAGTTT........................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
..............................................................................................................................TATCGGCCACAGAATTTATTTACCGG.....................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................TGTTATCCGCAAAAGCAGGTG.............................................	21	20	0.05	1	0	0	0	0	0	1
........................................................TTTCACCAGAAAAGGTAGGAC................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0
..................................................................................................TAAAGTTTGACGGTAGTAAGG......................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1
..................................................................................................TAAAGTTTGACGGTAGTAAGGA-CGG.................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0
...........................................................................................TGGAAGGTAAAGTTTGACGGTAGTAAGG......................................................................................................................................................................	28	20	0.05	1	0	1	0	0	0	0
....................................................................................TCAAAACTGGAAGGTAAAGTTTGACGG..............................................................................................................................................................................	27	20	0.05	1	0	0	0	0	0	1
.............................................................................................................................................TTATTTACCGGGTACGTTCCTTGAC.......................................................................................................................	25	20	0.05	1	0	1	0	0	0	0
........................................................TTTCACCAGAAAAGGTAGGACATG.............................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................TGTTATCCGCAAAAGCAGGTGATT..........................................	24	20	0.05	1	0	1	0	0	0	0
.....................................................................................CAAAACTGGAAGGTAAAGTTTGACGG..............................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0
............................................................................................................................................................................................................................GTTATCCGCAAAAGCAGGTGATTGG........................................	25	20	0.05	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................TGTTATCCGCAAAAGCAGGTGATTG.........................................	25	20	0.05	1	0	1	0	0	0	0
.........................................................TTCACCAGAAAAGGTAGGACATG.............................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0
........................................................TTTCACCAGAAAAGGTAGGACA...............................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
....................................................................................TCAAAACTGGAAGGTAAAGTTTGA.................................................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	1
...........................................................................................................................................................CGTTCCTTGACGGCACAGAC..............................................................................................................	20	20	0.05	1	0	1	0	0	0	0
.................................................................................................................................................................................TGGGAAACAATTTCCAGCTGGTTTGCG.................................................................................	27	20	0.05	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................TGTTATCCGCAAAAGCAGGTGATTGGC.......................................	27	20	0.05	1	0	1	0	0	0	0

droAna3

AGT------------A---------GGCAG---------ATT---CTTTTCGGCAGTCCAGCCTGAGAAAGTACCAAGTATCATTCAGAGTTGACACATTAAGTTCGATGGTACGAAGGA-GGGATTGCAAGCCGAAGAATTTCTATATCGAGTAGAAGCCTTAGCTAAGCAGAATCTCAGCGGCGATATACAGCTTTTGTGTGATCATTTACACCTATTCTTTATAGGGAAAGCAGGTGAATAGTAATGGAATTTCCACCGGTCATTCC---------AACGTT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
...............................................................................................................................................CTATATCGAGTAGAAGCCTTAGCT......................................................................................................................	24	1	1.00	1	0	1	0	0	0	0
.....................................................................................................................................................................CTAAGCAGAATCTCAGCGGCG...................................................................................................	21	6	0.17	1	1	0	0	0	0	0
..................................................................................................................................................TATCGAGTAGAAGCCTTAGCTAAGC..................................................................................................................	25	13	0.08	1	0	1	0	0	0	0
....................................................................................................................................................TCGAGTAGAAGCCTTAGCTAAGCAGAAT.............................................................................................................	28	13	0.08	1	1	0	0	0	0	0
......................................................................................................................................................GAGTAGAAGCCTTAGCTAAGCAGAAT.............................................................................................................	26	18	0.06	1	1	0	0	0	0	0
.................................................................................................ATTAAGTTCGATGGTACGAAGGA-GG..................................................................................................................................................................	25	19	0.05	1	0	1	0	0	0	0
..................................................................................................TTAAGTTCGATGGTACGAAGGA-GG..................................................................................................................................................................	24	19	0.05	1	0	1	0	0	0	0
...................................................................................................TAAGTTCGATGGTACGAAGGA-GGGAT...............................................................................................................................................................	26	19	0.05	1	1	0	0	0	0	0
............................................................................................................TGGTACGAAGGA-GGGATTGCAAGC........................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0
.......................................................................................................................A-GGGATTGCAAGCCGAAGAATT...............................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
...................................................................................................TAAGTTCGATGGTACGAAGG......................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
..................................................................................................TTAAGTTCGATGGTACGAAGGA-G...................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0
...........................................................................................................ATGGTACGAAGGA-GGGATTGCAAG.........................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
..............................................................................................................GTACGAAGGA-GGGATTGCAA..........................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0
..............................................................................................CACATTAAGTTCGATGGTACGAAGG......................................................................................................................................................................	25	20	0.05	1	1	0	0	0	0	0
...................................................................................................TAAGTTCGATGGTACGAAGGA-GG..................................................................................................................................................................	23	20	0.05	1	1	0	0	0	0	0
............................................................................................................................................................................................................................CTTTATAGGGAAAGCAGGTGAAT..........................................	23	20	0.05	1	0	1	0	0	0	0
....................................................................................................AAGTTCGATGGTACGAAGGA-GGGA................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0

droBip1

CAGCCACCAATACGGCCAACAATTATGCAG---------ATC---CTGTTCGGCATTCCAGCCCGCGAAAGTACCAAGCATCATCCAGAGTTGGCACATTAAGTTCGACGGTACGAAGGA-GGGTTTGCAAGCCGAAGAATTTCTTTACCGAGTTGAAGCATTAGCTAAGCAGAATCTCAGCGGAGATAAACAGCATTTGTGTGATCATTTACACCTATTCTTTATAGGCAAAGCAGGGGAATGGTTCTGGAATTTTCATCGTTCCTACC---------AACAGT	Size	Hit Count	Total Norm	Total
No Reads

droKik1

ATCTAGTCGACACTCT---------GAGAG---------GTC---GCACACTTCGGTGCAGCCGGAGAAGGTGCCCGGTATTATTCAGAGTTGGCACATCAAATTTGATAGAGCCAAAGA-TGGTTTGCAGACAGAGGATTTTCTGTACAGAGTACAAGCACTAGCCCAACAGAATTTAAACGGAGATCATCAGCTTCTTTGTGATCACCTACATCTGTTCTTTACCGGCAAAACGAATGAGTGGTATTGGAAATTCCACCAAGCATGTA---------CGAATT	Size	Hit Count	Total Norm	Total
No Reads

droFic1

C------------------------------------------------------------CCAGAAAAGGTGTC-AGGATTATTCAAAAATGGGGATTAAAGTTTGACGGCAGCAAAAC-CAGCCTCAGGATGGACGAGTTT-TTGACAGGATAGGCTCACTTACCAAACAGAATCTAGGTAATGATTATGCTTTACTGTGTGACCATTTGTATCTTTTGTTT--CGGGAAAGCCAGTGATTGGTATTGGAAATTCCATCGCAACAATC---------CAAATT	Size	Hit Count	Total Norm	Total
No Reads

droEle1

GAATACTCAGCGTGTC---------GATAG---------GTC---AATTTCTTCGATTCAGCCAGATAAGGTGCCGAATATTATTCAGAGCTGGCACATCAAGTTTGATAGATCCAAGGA-AGGTTTACAGGCTGAGGAATTTCTTTATCGAGTGCATGCATTAGCTAGACAGAATTTAAATGGAGATCGTCAAC---TGTGCGATAATTTGCATTTATTTTTCGTCGGCAAGGCTAGTGAATGGTACTGGAGATTTCACCGGACGTATC---------ATCAAT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AAATACTCAGGGCGTC---------GATAG---------ATC---GCTTTCTTCGATACGGCCAGATAAGGTGCCGAATATTATTCAAAGCTGGCACATCAAGTTTGATGGATCCAAGGA-GAGTTTACAGGCTGAGGAATTTCTTTATCGAGTACAAGCATTGGCTCGACAGAATTTAAATGGAGATCGTCAACT---TTGCGATAACTTACATTTATTTTTCGTCGGCAAGGCTAGTGAATGGTACTGGAGATTTCACCGAATGTATC---------GTCAAT	Size	Hit Count	Total Norm	Total
No Reads

droBia1

A------------------------------------------------------------CCTGAAAAGGTTTCAAGTAGTATTCAAAA-TGTGGTATAAAGTTCGATGGTAGCAAAAC-AAGCATTAGGGTGAACGAATTTCTTTATAGGGTGTGTTCTCTTACCAAACAAAATCTGGGGAATGATTTTCAACTTGTTTGTGATCGTTTACAGTTTCTCTTTACGGGAAGAGCTAGCGATTGCTATTGGAAATTCCATAGTCCGAACTTTGGCTGGCCAAATT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CGCGTAGCAACA--CA---------AGCAG---------TTCGGGACACGCTTTGATCACACCTGAAAAAGTCGCGAATATCATGCAAAGTTGGCGTATAAAATTTGAAGGCTCTAAAGA-CGGTCTGCAAACCGAAGAATTCTTATATAGGATTTGCGCACTAACAAAGCAAAATCTACACAGCAATTACAATCTTGTGTGTGACCACTTACATTTACTCTTCGGAGGTAAAGCCAGTGAGTGGTACTGGAAATTTCACCAGACAAATC---------CCGGTT	Size	Hit Count	Total Norm	Total
No Reads

droEug1

AAACACTCAGCGCGTC---------GATAG---------ATC---AAGTTCTATAGTTCAGCCAGAAAAGGTGCCGAGCATCATTCAGAGCTGGCACATCAAGTTTGATGGATCTAAGGA-CGGGTTACAGACCGAAGAGTTCCTTTATCGCATACAGGCATTAGCACGGCAAAATTTAAATGGGAATCATAAGCTTCTGTGTGACCATCTTCATTTATTTTTCGTTGGCAAAGCGAGCGAATGGTACTGGAAATTCCACCGTTCGTTTC---------CTCAGT	Size	Hit Count	Total Norm	Total
No Reads

dm3

C-------------------------------------------------------------CGGACAAAGTGCCAAGCATAATCTAGAGTTGGCGAGATAAAT-----AGCGCTCGAGA-T--------GGCCGAAGAATTCCTTTACCGTGT------GTTAGCCCAACAAAACCTAAACGGGGACCGACAGATCCAGTGTAACCACTTACACTTATTCTTTAATGGTAAAGCCAATGAATGGTATTGGAAGTTCCATTGTACAAATC---------CAAACT

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

No Reads

droSim2

C-------------------------------------------------------------CGGACAAAGTACCAAGCATAATCCAGAGTTGGCGAATTAAATTCGATGGCGAACGAAA-TTGCCTGCAGAGCGAAGAATTCCTTTACCGTGTGTTATCCCTAGCCCAACAAAACCTAAACGGGGAGAGACAGATCCTGTGTGACCACTTACACTTATTCTTTAATGGGAAATCCAATGAATGGTATTGAAAGTTCCATCGTACAAATC---------CAAACT

Size

Hit Count

Total Norm

Total

M023
Head

M024
Male-body

M025
Embryo

M053
Female-body

O001
Testis

O002
Head

SRR553485
Ovary

SRR553486
Ovary

SRR553487
Ovary

SRR553488
Ovary

SRR618934
Ovary

V044
Embryo

SRR902008
Ovary

SRR902009
Testis

SRR1275487
Male larvae

SRR1275485
Male prepupae

SRR1275483
Male prepupae

No Reads

droSec2

C-------------------------------------------------------------CAGATAAAGTCGTCCACATATTAAATGGTTGGAAAATAAAATATTCTGGTGT-------AGGAGTGTCAGTGGACAACTTTATATACAGAGTCGAAGCGCTTACAAGGCAGACGTTGAATGGAAATTTCAACTTGTTATGTAGGAACATATGTGTATTGTTTGAAGGCAAGGCTAACGACTTCTTTTGGCGCTATCATAAAGCCAACGG--------TGAAAT	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
.............................................................................................................................................................AGCGCTTACAAGGCAGACGTTGA.........................................................................................................	23	20	0.65	13	11	0	2	0
.................................................................................................................................................................................................................ATATGTGTATTGTTTGAAGGC.......................................................	21	2	0.50	1	1	0	0	0
..................................................................................................................................................................................................................TATGTGTATTGTTTGAAGGCAAGGC..................................................	25	2	0.50	1	1	0	0	0
...........................................................................................................................................................................................................................................................CGCTATCATAAAGCCAACGG--------TGAAA.	25	16	0.31	5	5	0	0	0
........................................................................................GGTTGGAAAATAAAATATTCTGGTG............................................................................................................................................................................	25	20	0.30	6	5	0	1	0
...........................................................................................................................................................................................................................................................CGCTATCATAAAGCCAACGG--------TGAA..	24	16	0.25	4	3	0	1	0
........................................................................................GGTTGGAAAATAAAATATTCTGGT.............................................................................................................................................................................	24	20	0.20	4	3	0	1	0
.............................................................................................................................................................AGCGCTTACAAGGCAGACGTTGAAT.......................................................................................................	25	20	0.20	4	2	0	2	0
.....................................................................................................................................................................................TGGAAATTTCAACTTGTTATGTAGGAAC............................................................................	28	20	0.15	3	3	0	0	0
........................................................................................GGTTGGAAAATAAAATATTCTGG..............................................................................................................................................................................	23	20	0.15	3	3	0	0	0
........................................................................................GGTTGGAAAATAAAATATTCTGGTGT-------....................................................................................................................................................................	26	20	0.15	3	3	0	0	0
.........................................................................................GTTGGAAAATAAAATATTCTGGTGT-------....................................................................................................................................................................	25	20	0.10	2	2	0	0	0
........................................................................................GGTTGGAAAATAAAATATTCTGGTGT-------A...................................................................................................................................................................	27	20	0.10	2	2	0	0	0
..............................................................................................................................................................GCGCTTACAAGGCAGACGTTGAAT.......................................................................................................	24	20	0.10	2	2	0	0	0
..................................................................TAAAGTCGTCCACATATTAAAT.....................................................................................................................................................................................................	22	20	0.10	2	1	0	1	0
.....................................................................................................................................................................................TGGAAATTTCAACTTGTTATGTAGGAACA...........................................................................	29	20	0.10	2	2	0	0	0
...................................................................................................................................................................TACAAGGCAGACGTTGAATGGAAAT.................................................................................................	25	20	0.10	2	0	0	1	1
.............................................................................................................................................................AGCGCTTACAAGGCAGACGTTGAA........................................................................................................	24	20	0.10	2	0	0	2	0
.............................................................................................................................................................AGCGCTTACAAGGCAGACGTTGT.........................................................................................................	23	20	0.10	2	0	0	2	0
............................................................................................................TGGTGT-------AGGAGTGTCAGTGGACAACTT...............................................................................................................................................	27	20	0.10	2	0	0	2	0
...........................................................................................................................................................................................................................................................CGCTATCATAAAGCCAACGG--------TG....	22	16	0.06	1	1	0	0	0
...........................................................................................................................................................................................................................................................CGCTATCATAAAGCCAACGG--------T.....	21	16	0.06	1	0	0	0	1
........................................................................................................................................................................................................................................................TGGCGCTATCATAAAGCCAACGG--------TGAAA.	28	16	0.06	1	1	0	0	0
............................................................................................................................................................................................................................................................GCTATCATAAAGCCAACGG--------TGAAAT	25	16	0.06	1	1	0	0	0
...........................................................................................................................................................................................................................................................CGCTATCATAAAGCCAACGG--------TGAAAC	26	16	0.06	1	1	0	0	0
...........................................................................................................................................................................................................................................................CGCTATCATAAAGCCAACGG--------TGA...	23	16	0.06	1	1	0	0	0
...........................................................................................................................................................................................................................................................CGCTATCATAAAGCCAACGG--------TGAAAT	26	16	0.06	1	1	0	0	0
............................................................................................................................................................................................................................................................GCTATCATAAAGCCAACGG--------T.....	20	16	0.06	1	1	0	0	0
.......................................................................................................................................................................................................................GTATTGTTTGAAGGCAAGGCTAACGA............................................	26	18	0.06	1	1	0	0	0
...........................................................................................................................................................................................................................TGTTTGAAGGCAAGGCTAACGACTTC........................................	26	19	0.05	1	1	0	0	0
..........................................................................................................................................................................................................................TTGTTTGAAGGCAAGGCTAACGA............................................	23	19	0.05	1	0	0	1	0
...........................................................................................................................................................................................................................................TAACGACTTCTTTTGGCGCTATCATAA.......................	27	19	0.05	1	1	0	0	0
...........................................................................................................................................................................................................................................TAACGACTTCTTTTGGCGCTATCAT.........................	25	19	0.05	1	1	0	0	0
..................................................................TAAAGTCGTCCACATATTAAATA....................................................................................................................................................................................................	23	20	0.05	1	1	0	0	0
.............................................................................................................................................................AGCGCTTACAAGGCAGACGTTGAATGG.....................................................................................................	27	20	0.05	1	1	0	0	0
..............................................................................................................................TGTCAGTGGACAACTTTATATACAGAGTA..................................................................................................................................	29	20	0.05	1	1	0	0	0
...............................................................................................................TGT-------AGGAGTGTCAGTGGACAA..................................................................................................................................................	21	20	0.05	1	0	0	1	0
.............................................................................................................................................................AGCGCTTACAAGGCAGACGTTG..........................................................................................................	22	20	0.05	1	0	0	0	1
..........................................................................................................TCTGGTGT-------AGGAGTGTCAGTGGACAAC.................................................................................................................................................	27	20	0.05	1	0	0	1	0
...............................................................................................................................................ATATACAGAGTCGAAGCGCTT.........................................................................................................................	21	20	0.05	1	0	0	1	0
.............................................................................................................................................................AGCGCTTACAAGGCAGACGTT...........................................................................................................	21	20	0.05	1	0	0	1	0
............................................................................................................................................................................................TTCAACTTGTTATGTAGGAAC............................................................................	21	20	0.05	1	1	0	0	0
............................................................................................................TGGTGT-------AGGAGTGTCAGTGGACAAC.................................................................................................................................................	25	20	0.05	1	0	0	1	0
.....................................................................................................................................................................................TGGAAATTTCAACTTGTTATGTAGG...............................................................................	25	20	0.05	1	1	0	0	0
....................................................................................................................................................CAGAGTCGAAGCGCTTACAAGGCAGA...............................................................................................................	26	20	0.05	1	0	0	1	0
............................................................................................................TGGTGT-------AGGAGTGTCAGTGGACA...................................................................................................................................................	23	20	0.05	1	0	0	1	0
..................................................................TAAAGTCGTCCACATATTAAATGGT..................................................................................................................................................................................................	25	20	0.05	1	1	0	0	0
...........................................................................................................................................................................................TTTCAACTTGTTATGTAGGAACA...........................................................................	23	20	0.05	1	1	0	0	0
.........................................................................................GTTGGAAAATAAAATATTCTGGT.............................................................................................................................................................................	23	20	0.05	1	1	0	0	0
............................................................................................................................................................................................TTCAACTTGTTATGTAGGAA.............................................................................	20	20	0.05	1	1	0	0	0
.......................................................................................................TATTCTGGTGT-------AGGAGTGTCAGTGGA.....................................................................................................................................................	26	20	0.05	1	1	0	0	0
..........................................................................................TTGGAAAATAAAATATTCTGGTGT-------A...................................................................................................................................................................	25	20	0.05	1	0	0	1	0
..............................................................................................................................................................GCGCTTACAAGGCAGACGTTGAATGGA....................................................................................................	27	20	0.05	1	1	0	0	0
............................................................................................................................................TTTATATACAGAGTCGAAGCGCTTAC.......................................................................................................................	26	20	0.05	1	1	0	0	0
..................................................................................................TAAAATATTCTGGTGT-------AGGAGTGTCAGT........................................................................................................................................................	28	20	0.05	1	1	0	0	0
..............................................................................................................................................................................................................................TTGAAGGCAAGGCTAACGACT..........................................	21	20	0.05	1	1	0	0	0
................................................................................................................................................TATACAGAGTCGAAGCGCTTACAAGGC..................................................................................................................	27	20	0.05	1	0	0	1	0
.............................................................................................................................................................AGCGCTTACAAGGCAGACGTTGAATGT.....................................................................................................	27	20	0.05	1	1	0	0	0

droYak3

CCCTAGTCAGCATTCA---------GACAG---------ATC---TCACACGTCCGTACAACCAGAGAAAGTTCCTAATATTATCCAGAGTTGGCACCTAAAATTTGATGGGGCGAAGGA-TGGATTGCAAACCGAAGATTTTCTATACAGAGTACAAGCTCTAGCACATCAGAATTTGAATGGCGATCACCAACTACTATGTGATCATTTGCATCTCTTTTTCATAGGCAAAGCGAACGAGTGGTATTGGAAATTCCACCGATCATGCC---------GACAGT	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
................................................................GAGAAAGTTCCTAATATTATCCAGAG...................................................................................................................................................................................................	26	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
........AGCATTCA---------GACAG---------ATC---TCACACGTCCG.....................................................................................................................................................................................................................................	27	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................ATATTATCCAGAGTTGGCACCTAA........................................................................................................................................................................................	24	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................TATTGGAAATTCCACCGATCATGCC---------......	25	4	0.50	2	0	2	0	0	0	0	0	0	0	0	0
......TCAGCATTCA---------GACAG---------ATC---TCACACG.........................................................................................................................................................................................................................................	25	6	0.33	2	0	2	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................TGGTATTGGAAATTCCACCGATCA...................	24	4	0.25	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................................................AGATTTTCTATACAGAGTACAAGC.............................................................................................................................	24	5	0.20	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................CCAACTACTATGTGATCATTTGCA.......................................................................	24	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................TTCATAGGCAAAGCGAACGAGTGGTA......................................	26	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
..CTAGTCAGCATTCA---------GACAG---------ATC---TC..............................................................................................................................................................................................................................................	24	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
.......CAGCATTCA---------GACAG---------ATC---TCACACG.........................................................................................................................................................................................................................................	24	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................TTTCATAGGCAAAGCGAACGAGTGG........................................	25	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................TTTTCATAGGCAAAGCGAACGAG...........................................	23	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
......TCAGCATTCA---------GACAG---------ATC---TCACA...........................................................................................................................................................................................................................................	23	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................TACTATGTGATCATTTGCATCTCTTT................................................................	26	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................TCATTTGCATCTCTTTTTCATAGGCA......................................................	26	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
......TCAGCATTCA---------GACAG---------ATC---TCACAC..........................................................................................................................................................................................................................................	24	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................CACATCAGAATTTGAATGGCGATC................................................................................................	24	8	0.13	1	0	0	0	0	0	0	1	0	0	0	0

droEre2

AAGAGGTGGAAACAGG---------AGCAA---------TGC---AAGCTCATATGTTAGCCCGGAAAAAGTATCAGGAATCATTCAAAAATGGGGATTAAAGTTCGACGGTAGCAAAAC-AAGCATCAGGATAGATGAATTCATTTACAGGATATGCTCACTCACCAAACAAAATCTAGGTAATGATTATGGACTTTTATGTGACCATTTGTACCTTCTGTTTGCAGGAAAAGCAAGCGATTGGTATTGGAAGTTTCATCGAAACAATC---------CAAATT	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
................................................................................................................AGCAAAAC-AAGCATCAGGATAGATGAAT................................................................................................................................................	28	20	0.25	5	5	0	0	0	0	0	0
.............................................................................................................................................TCATTTACAGGATATGCTCACTCA........................................................................................................................	24	20	0.05	1	1	0	0	0	0	0	0
.....................................................ATGTTAGCCCGGAAAAAGTATCAGGA..............................................................................................................................................................................................................	26	20	0.05	1	0	0	0	0	1	0	0
...............................................................................................................................................ATTTACAGGATATGCTCACTCACC......................................................................................................................	24	20	0.05	1	1	0	0	0	0	0	0
....................................................................................................................................................................................................................................GAAAAGCAAGCGATTGGTATT....................................	21	20	0.05	1	0	0	0	0	1	0	0
..................................................................................................................................................TACAGGATATGCTCACTCACCAAACAA................................................................................................................	27	20	0.05	1	1	0	0	0	0	0	0
...................................................................................................................................................ACAGGATATGCTCACTCAC.......................................................................................................................	19	20	0.05	1	0	0	0	0	1	0	0
.........AAACAGG---------AGCAA---------TGC---AAGCT...........................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1	0	0
....................................................................................................................................................................................................................................................GTATTGGAAGTTTCATCGAAAC...................	22	20	0.05	1	0	0	0	0	1	0	0
...............................................................................................................................................ATTTACAGGATATGCTCACTCAC.......................................................................................................................	23	20	0.05	1	1	0	0	0	0	0	0

-30.7	-30.3	-30.2	-30.2

dvi_9657

scaffold_12954:644238-644388 +

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