dpe_1737

exon [dper_GLEANR_8457:3]; CDS [Dper\GL25907-cds]; exon [dper_GLEANR_8457:4]; CDS [Dper\GL25907-cds]; intron [Dper\GL25907-in]

Name	Class	Family	Strand
AT_rich	Low_complexity	Low_complexity	+

##################################################-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## AAGTCCTTGAGATTGTTGTCGATGGCCAAGTCAAAAGATGCGGCGGCTTGGTAGGTTCGGCCTCTTGCAAAGGATGCGCTTCTGTCCTGCTGGAATGCCATTCTGTCTGACTGGGATTCCGTCTTGCGTTGGGAAATCGGATACGACTCGGTGGCAAGGCGTAATGTACATATGTACATAAGTTTGCTGTGATGGAAGAAATATTTTTTTTAAATATATTCATAATTATATACTTTTTTACTTACGCGTCTCGAAGCTGAAGCCCAGCGTTTGATTCGGCGGCGCATGGATGTGGGGGTTGCTGACATTATTTCACTAGTCCCTGCTGCATAGGACGAGACGCCACATTGCCGACTCAGCGACACAGCAGCGGCATCAGGAGT **********************************************************************************************************************(((((((.(((((...(((....))))))))..)))))))...((((((....))))))((((....((((((....(((((((((.....)))))).)))...)))))).))))....(((..(((((((((..((((((.............))))))..))...)))))))..)))..********************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V111 male body	V042 embryo	V057 head	M042 female body	M021 embryo	V050 head
........................................................................................................................................................................................................................................................................................GGCGCATGGATGTGGGGGTTG..................................................................................	21	0	1	2.00	2	2	0	0	0	0	0
..................................AAGATGCGGCGGCTTGGTAGG........................................................................................................................................................................................................................................................................................................................................	21	0	1	1.00	1	1	0	0	0	0	0
........................................................................................................................GTCTTGCGTTGGGAAATCG....................................................................................................................................................................................................................................................	19	0	1	1.00	1	1	0	0	0	0	0
...............................................................................................................................GTTGGGAAGTCGGATACGAC............................................................................................................................................................................................................................................	20	1	1	1.00	1	1	0	0	0	0	0
.GGTCCTTGAGATTGTTGTC...........................................................................................................................................................................................................................................................................................................................................................................	19	1	1	1.00	1	1	0	0	0	0	0
...............................................................................................................................................................................................................................................................................TGATTCGGCCACGCATGGATGTC.........................................................................................	23	3	1	1.00	1	0	0	1	0	0	0
...............................................................................................................................................................................................................................................................................TGATTCGGCCACGTATGGATGTG.........................................................................................	23	3	1	1.00	1	0	1	0	0	0	0
................................AAAAGATGCGGCGGCTTGGTAGG........................................................................................................................................................................................................................................................................................................................................	23	0	1	1.00	1	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................ATGGATGTGGGGGTTGCTGAC.............................................................................	21	0	1	1.00	1	1	0	0	0	0	0
...............................................................................................................................................................................................................................................................................TGATTCGGCTACGTATGGATGTG.........................................................................................	23	3	1	1.00	1	0	1	0	0	0	0
........................................................................................................................GTCTTGCGCTGGGAAATCG....................................................................................................................................................................................................................................................	19	1	1	1.00	1	1	0	0	0	0	0
.............................................................................................................................GCGTTGGGAAATCGGATACGA.............................................................................................................................................................................................................................................	21	0	1	1.00	1	1	0	0	0	0	0
.....CTTGAGATTGTTGTCGATGGC.....................................................................................................................................................................................................................................................................................................................................................................	21	0	2	0.50	1	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................ATGTGGGGGTTGCTGACATGT.........................................................................	21	2	2	0.50	1	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................GAAGCCCAGCGTTTGATTCGG........................................................................................................	21	0	5	0.40	2	2	0	0	0	0	0
...........................................................................................................TGACTGGGATTCAGGCTTG.................................................................................................................................................................................................................................................................	19	2	4	0.25	1	0	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................CTCAGCGACACAGCAGCGGCA........	21	0	5	0.20	1	0	0	0	1	0	0
.....................................................................................................................................................................................................................................................................................................................ATTGCACTAGTCCCCCCTG.......................................................	19	3	17	0.18	3	0	0	0	0	3	0
............................CGTCAAGAGATGCGGCGGC................................................................................................................................................................................................................................................................................................................................................	19	2	6	0.17	1	0	0	1	0	0	0
..............................................................................................................................................................................................................................................................................................TGGAAGTGGGGGTAGCTGGC.............................................................................	20	3	10	0.10	1	0	0	1	0	0	0
....................................................................................................................................................................................AGGTTGCTTTGATGGAAGAG.......................................................................................................................................................................................	20	3	10	0.10	1	0	1	0	0	0	0
..GTCCTTGAGATGGTTGTCGAT........................................................................................................................................................................................................................................................................................................................................................................	21	1	11	0.09	1	0	0	0	0	0	1
..GTCCTTGAGATGGTTGTCG..........................................................................................................................................................................................................................................................................................................................................................................	19	1	12	0.08	1	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................TCTGGGAGATGCTGACATTA.........................................................................	20	3	14	0.07	1	0	0	1	0	0	0

TTCAGGAACTCTAACAACAGCTACCGGTTCAGTTTTCTACGCCGCCGAACCATCCAAGCCGGAGAACGTTTCCTACGCGAAGACAGGACGACCTTACGGTAAGACAGACTGACCCTAAGGCAGAACGCAACCCTTTAGCCTATGCTGAGCCACCGTTCCGCATTACATGTATACATGTATTCAAACGACACTACCTTCTTTATAAAAAAAATTTATATAAGTATTAATATATGAAAAAATGAATGCGCAGAGCTTCGACTTCGGGTCGCAAACTAAGCCGCCGCGTACCTACACCCCCAACGACTGTAATAAAGTGATCAGGGACGACGTATCCTGCTCTGCGGTGTAACGGCTGAGTCGCTGTGTCGTCGCCGTAGTCCTCA ********************************************************************************(((((((.(((((...(((....))))))))..)))))))...((((((....))))))((((....((((((....(((((((((.....)))))).)))...)))))).))))....(((..(((((((((..((((((.............))))))..))...)))))))..)))..**********************************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V057 head	M042 female body	V111 male body
.................................................................................................................................................TGAGCCACCGTTCCGCATTACATGT.....................................................................................................................................................................................................................	25	0	1	1.00	1	0	1	0
....................................................................................................................................................................................................................................................................................GTCGCCGCGTACCTACACCCC......................................................................................	21	1	1	1.00	1	1	0	0
.....................................................................................................................................................................................................................................................CGCAGAGCTTCGACTTCGGGTCGCAAAC..............................................................................................................	28	0	5	0.20	1	1	0	0
.......................................................................CCTACGCGGAGACAGGACGA....................................................................................................................................................................................................................................................................................................	20	1	6	0.17	1	0	0	1
...............................................................................................................TCCCTAAGGCAGAACGAT..............................................................................................................................................................................................................................................................	18	3	20	0.05	1	1	0	0

Species	Coordinate	ID	Alignment
droPer2	scaffold_5:562593-562975 +	dpe_1737	A-AG------TCCTTGAGATTGTTGTCGATG---GCCAAGTCAAA-------------------AGATG-CG------GCGGCTTGGTAGGTTC------------------------------------GGCCTC---------TTGCAAAGGATGCGCTTCTGTCCTGCTGGAATGCCATTCTGTCTGA--------------------------------CTGGGATTCCGTCTTGCGTTG-----------------GGAAATCGGATACGACTCGGT----GGCAAGGCGTAATGTACATAT----GTACATAAGTTTGCTGTGATGGAAGAAATATTTTTTTTAAATATATTCATAAT---TA--TATA----C-TTTTTTACTTACGCGTCTCGAAGCTGAAGCCCAGCGTTTGATTCGGCGGCGCATGGATGTGGGGGTTGCTGACATTATTTCACTAGTCCCTGCTGCATAGGACGAGACGCCACATTGCCGACTCAGCGACACAGCAGCGGCATCAGGAGT
dp5	4_group1:4649112-4649502 -	dps_1422	A-AG------TCCTTGAGATTGTTGTCGATG---GCCAAGTCAAA-------------------AGATG-CG------GCGGCTTGGTAGGTTC------------------------------------GGCCTC---------TTGCAAAGGATGCGCTTCTGTCCTGCTGGAATGCGATTCTGTCTGA--------------------------------CTGGGATTCCGTCTTGCGTTG-----------------GGAAATCGGATACGACTCAGTTTGTGGCAAGGCGTAATGTACATATGTATGTACATAAGTTTCCTGTGAAGGAAGAAAATTTTTTTTTAAATATATTCATAAT---TA--TATA----C-TGTTTTACTTACGCGTCTCGAAGCTGAAGCCCAGCGTTTGATTCGGCGGCGCATGGATGTGGGGGTTGCTGACATTATTTCACTAGTCCCTGCTGCATAGGACGAGACGCCACATTGTCGACTCAGCGACACAGCAGCGGCATCAGGAGT
droWil2	scf2_1100000004585:6712935-6713107 -		A-AA------TCTTTCAGATAGTTATCAATG---GCCAAGTCAAA-------------------TGTGGATG------ATGGCTTATTTGGATTAGGTTCTCCTCCAGCATAGGCCTTGGACTGTGCTTGAGGTTCTTCGGGTATTGGTATGGAATAGCTCTCAGTTTGTGTGGGATAGGCTTGTGTTTGA--------------------------------CTA------------------------------------------GGATAGGATTCGGT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3	scaffold_12963:14571687-14571891 +		A-AA------TCCTTGAGATAGTTATCGATA---GCCAGGTCGAA-------------------GGATGACGCGGACTCTGGTTTTATCGAATTCGACTCGGGTGTCTCGTATGACTTGTCC------------------------------GGATATGCCTCCGTCTGCGTGGGATATGCCTCGGTCTGGGGCATGGGCAATGGCACTGGCTGGGGCTCGGGCTGGGACTCAGGCTCGGGCTC-----------------GGGCGCTGGATACGATTTGG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3	scaffold_6500:12177205-12177336 -		TGTGAAGAAGTCCGCT------------GTG---AGCAGTTGAAAAGAGAAAC-TCAATTGAAATTTGAAAC------ATGATCAAACCGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TT--TATA----C--TCTCTACTCACGCGTCTCGAAGCTGAAGCCTAGCGTTGGGTCTGGCGGCGTATTGA---------------------------------------------------------------------------------------------
droAna3	scaffold_12943:916431-916617 -		A-AG------TCCTTCAGGTAGTTGTCAATG---GCCAGGTCGAA-------------------GGTGGAGG------ATGGCTTGTCCGGTCCGGGTACGGAGTTGTCGTAAGTCTTTACCGGGGCCGGAGGAGG---------TGGCACGGGATACGATTCCGTTTGCGGGGCATACGACTCCGTGTGG--------------------------------CTGGGATAGGACTCCGAGGC---------------------GGTAGGATAGGACTCCTT----GG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBip1	scf7180000396535:143347-143518 +		-GTGAAGAAGTCCGCT------------GTGGAATATAATTAAAAATATATATTTTAATTG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATTTTTTAAT---TA--AAAA----A-TTAGCTACTTACGCGTCTCGAAGCTAAAGCCTATTGTTGGATCTGGCGGTGTGTTGAGCATGGAGTTGTTAC------TAACATTG---CCGCTGCCCGT----GGGCGTTACATTGCC-------------------------------
droKik1	scf7180000302472:1879650-1879851 -		A-AG------TCCTTCAGATAGTTATCTATG---GCTAGATCAAA-------------------GTTGGACG------ATGGCTTGTCCGCTCCGGACTCCAGACTGCCGTAAGACTTGGCCTGCGGCTGTGG---------------GGACTGATAGGATTCCGTGATGCTGGGATAGGACTCGGTCTGG--------------------------------CTGGGATAGGACTCTGTGATGCTGGGATAGGACTCTTTGTGGCTGGGATAGGACTCCGT----GG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droFic1	scf7180000449391:845-1036 +		A-AG------TCCTTCAGGTAGTTATCGATG---GCCAGATCGAA-------------------GGTTGAGG------ATGGCTTGTCGGGACCCGATTCGGGTGCTCCATATGGCTTCACCTCCGGCTGGGGCTG---------TGGCACAGGACTC------------GGCTGATAGGACTCGGTCTGG--------------------------------CTGGGATACGATTCCGTGATGCTGGGATAGGAATCCT------TGGGATACGATTCCGT----GA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-------------------------------
droEle1	scf7180000491186:2179595-2179753 -		A-GA------TATTTTGGCTAT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGTTTTGACCATTATGTATGTGTATATAACG-TCTTCTACTTACGCGTCTCAAAACTAAAGCCCAGCGTTGGATCTGGCGGCGTATTGAGCATGGAGTTGCCGACATTGCCGACATTG---CCGCTGCCCGT----GGGCGTTACATTGCC-------------------------------
droRho1	scf7180000778060:37049-37145 +		T-AA------GTTTATACGTGAT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A--TAT-----C-TATTTTACTTACGCGTCTCAAAACTAAAGCCCAGCGTTGGATCTGGCGGCGTGTTGAGCATGGAGTTGCCGACATT--------------------------------------------------------------------------
droBia1	scf7180000302408:3629148-3629355 +		A-AG------TCCTTCAGGTAGTTATCAATG---GCCAGGTCGAA-------------------GGTGGAGG------ATGGCTTATCGGGACCCGATTCGGGGCCACCATATGGCTTGACCTGCGGCTGTGGCTC---------CGGCACAGGGTAGGCCTCCGTGCGGGGTTGATAGGACTCGGTTTGG--------------------------------CTGGGATATGACTCCGTGATGCTGGGATAAGAGTCCTTGTGGCTGGGATACGACTCCGT----GG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droTak1	scf7180000415702:272525-272657 +		-GTGAAGAAGTCCGCT------------GTTGGA-----------------AG-GGAA-G----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAGCAT--GAGTTATGATTAAAATAAA-ATATATATGAAT-TGATTTACTTACGCGTCTCGAAGCTAAAGCCAAGCGTTGGATCTGGCGGCGTGTTGAGCATGGAGTTG----------------------------------------------------------------------------------
droEug1	scf7180000409554:223198-223275 +		A-C------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTTATACTTACGCGTCTCGAAACTAAAGCCCATCGTTGGGTCTGGCGGCGTGTTGAGCATGGAATTGCTGACATT--------------------------------------------------------------------------
dm3	chr2L:9245649-9245789 -		-GTGAAGAAGTCCGCT------------ATCGAA-----------------AT-AAAAATGAAATTTTA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAATTATAACCAAAATAAATA--TATG----TG-CTAGTACTTACGCGTCTCGAAGCTGAAGCTCAGCGTTGGGTCCGGTGGCGTGTTGAGCATGGAGTTGCTGACATT--------------------------------------------------------------------------
droSim2	2l:8938422-8938560 -		-GTGAAGAAGTCCGCT------------ATGGTA-----------------AT-AAAAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAATTTTGAAGTTATATCCAAAATAAATA--TGTG----TG-CCAGTACTTACGCGTCTCGAAGCTGAAGCTCAGCGTTGGGTCCGGCGGCGTGTTGAGCATGGTGTTGCTGACATT--------------------------------------------------------------------------
droSec2	scaffold_3:4704598-4704736 -		-GTGAAGAAGTCCGCT------------ATGGAA-----------------AT-AAAAAT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAATTTTGAAGTTATAACCAAAATAAATA--TGTG----TG-CCAGTACTTACGCGTCTCAAAGCTGAAGCTCAGCGTTGGGTCCGGCGGCGTGTTGAGCATGGAGTTGTTGACATT--------------------------------------------------------------------------
droYak3	2L:11912923-11913062 -		-GTGAAGAAGTCCGCT------------GTGCAA-----------------AT-AAAA-C----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAATTTTATAATTATAAGTAAAATGCATATATATG----TG-CTGGTACTTACGCGTCTCGAAGCTGAAGCTCAGCGTTGGGTCTGGCGGCGTGTTGAGCATGGAGTTGCTGACATT--------------------------------------------------------------------------
droEre2	scaffold_4929:9851134-9851300 -		-GTGAAGAAGTCCGCT------------GTGGAA-----------------AT-ATAAGCAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGCCTTGTAGTTATAACCAAAATAAATA--TACG----TG-CCAATACTTACGCGTCTCGAAGCTGAAGCTCAGCGTTGGGTCTGGCGGCGTGTTGAGCATGGAGTTGCTGACATTG------------CCGCTGCCCGT----GGGCGTCACGTTGCC-------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droPer2

A-AG------TCCTTGAGATTGTTGTCGATG---GCCAAGTCAAA-------------------AGATG-CG------GCGGCTTGGTAGGTTC------------------------------------GGCCTC---------TTGCAAAGGATGCGCTTCTGTCCTGCTGGAATGCCATTCTGTCTGA--------------------------------CTGGGATTCCGTCTTGCGTTG-----------------GGAAATCGGATACGACTCGGT----GGCAAGGCGTAATGTACATAT----GTACATAAGTTTGCTGTGATGGAAGAAATATTTTTTTTAAATATATTCATAAT---TA--TATA----C-TTTTTTACTTACGCGTCTCGAAGCTGAAGCCCAGCGTTTGATTCGGCGGCGCATGGATGTGGGGGTTGCTGACATTATTTCACTAGTCCCTGCTGCATAGGACGAGACGCCACATTGCCGACTCAGCGACACAGCAGCGGCATCAGGAGT	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
............................................................................................................................................................................................................................................................................................................................................................................................................................................GGCGCATGGATGTGGGGGTTG..................................................................................	21	1	2.00	2	0	0	0	0	0	2
............................................A-------------------AGATG-CG------GCGGCTTGGTAGG........................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	1
.........................................................................................................................................................................................................................................GTCTTGCGTTG-----------------GGAAATCG......................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1
..........................................AAA-------------------AGATG-CG------GCGGCTTGGTAGG........................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1
.................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGGATGTGGGGGTTGCTGAC.............................................................................	21	1	1.00	1	0	0	0	0	0	1
..............................................................................................................................................................................................................................................GCGTTG-----------------GGAAATCGGATACGA...............................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	1
............CTTGAGATTGTTGTCGATG---GC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	2	0.50	1	0	0	0	0	0	1
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGTGGGGGTTGCTGACATGT.........................................................................	21	2	0.50	1	0	0	0	0	0	1
......................................................................................................................................................................................................................................................................................................................................................................................................................GAAGCCCAGCGTTTGATTCGG........................................................................................................	21	5	0.40	2	0	0	0	0	0	2
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTCAGCGACACAGCAGCGGCA........	21	5	0.20	1	0	1	0	0	0	0

dp5

A-AG------TCCTTGAGATTGTTGTCGATG---GCCAAGTCAAA-------------------AGATG-CG------GCGGCTTGGTAGGTTC------------------------------------GGCCTC---------TTGCAAAGGATGCGCTTCTGTCCTGCTGGAATGCGATTCTGTCTGA--------------------------------CTGGGATTCCGTCTTGCGTTG-----------------GGAAATCGGATACGACTCAGTTTGTGGCAAGGCGTAATGTACATATGTATGTACATAAGTTTCCTGTGAAGGAAGAAAATTTTTTTTTAAATATATTCATAAT---TA--TATA----C-TGTTTTACTTACGCGTCTCGAAGCTGAAGCCCAGCGTTTGATTCGGCGGCGCATGGATGTGGGGGTTGCTGACATTATTTCACTAGTCCCTGCTGCATAGGACGAGACGCCACATTGTCGACTCAGCGACACAGCAGCGGCATCAGGAGT	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
................................................................................................................................................................................TGCGATTCTGTCTGA--------------------------------CTGGG...............................................................................................................................................................................................................................................................................................................	20	1	21.00	21	0	0	0	0	0	0	1	0	19	1
...............................................................................................................................................................................ATGCGATTCTGTCTGA--------------------------------CTGGG...............................................................................................................................................................................................................................................................................................................	21	1	11.00	11	0	0	0	0	0	0	0	0	11	0
................................................................................................................................................................................TGCGATTCTGTCTGA--------------------------------CTGGGA..............................................................................................................................................................................................................................................................................................................	21	1	8.00	8	0	0	0	0	0	0	0	0	8	0
...........................................................................................................................................................................................................................................................................CGGATACGACTCAGTTTGTGG...................................................................................................................................................................................................................................................	21	1	4.00	4	1	0	0	0	0	0	0	0	3	0
......................................................................................................................................................................................................................................................................................................................................................................CATAAT---TA--TATA----C-TGTTTTAC..............................................................................................................................................	21	1	4.00	4	0	0	0	0	0	0	0	0	4	0
......................................................................................................................................................................CCTGCTGGAATGCGATTCTG.........................................................................................................................................................................................................................................................................................................................................................	20	1	4.00	4	0	0	0	0	0	0	4	0	0	0
...............................................................................................................................................................................ATGCGATTCTGTCTGA--------------------------------CTGG................................................................................................................................................................................................................................................................................................................	20	1	4.00	4	0	0	0	0	0	0	0	0	4	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCTGCATAGGACGAGACGC........................................	20	1	4.00	4	0	0	0	0	0	0	0	0	4	0
................................................................................................................................................................................TGCGATTCTGTCTGA--------------------------------CTGG................................................................................................................................................................................................................................................................................................................	19	1	3.00	3	0	2	0	0	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................................................................................................T---TA--TATA----C-TGTTTTACTTAC..........................................................................................................................................	20	1	3.00	3	0	0	0	0	0	0	0	0	3	0
......................................................................................................................................................................CCTGCTGGAATGCGATTCTGTCC......................................................................................................................................................................................................................................................................................................................................................	23	1	3.00	3	0	0	0	0	0	0	0	0	3	0
..................................................................................................................................................................CTGTCCTGCTGGAATGCGATT............................................................................................................................................................................................................................................................................................................................................................	21	1	3.00	3	0	0	0	0	0	0	3	0	0	0
......................................................................................................................................................................................TCTGTCTGA--------------------------------CTGGGATTCCG.........................................................................................................................................................................................................................................................................................................	20	1	2.00	2	0	0	0	0	0	0	0	0	2	0
.....................................................................................................................................................................TCCTGCTGGAATGCGATTCTG.........................................................................................................................................................................................................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	1	0	1	0
..................................................................................................................................................................................................................................................................................................................................................................TATTCATAAT---TA--TATA----C-TGTT..................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	2	0
.......................................................................................................................................................................CTGCTGGAATGCGATTCTG.........................................................................................................................................................................................................................................................................................................................................................	19	1	2.00	2	0	0	0	0	0	0	0	0	2	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................................TGGATGTGGGGGTTGCTGACA............................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	2	0
................................................................................................................................................................................................................................................GTTG-----------------GGAAATCGGATACGAC..............................................................................................................................................................................................................................................................	20	1	2.00	2	0	0	0	0	0	0	1	0	1	0
....................................................................................................................................................................................ATTCTGTCTGA--------------------------------CTGGGATTCC..........................................................................................................................................................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	1	0	1	0
....................................................................................................................................................................................................................................................................................................................................................................................ATA----C-TGTTTTACTTACGCGTC.....................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	2	0
...........................................................................................................................................................................................................................................................................................................................................................................T---TA--TATA----C-TGTTTTACTTACG.........................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	2	0
.................................................................................................................................................................................................................................................................................CGACTCAGTTTGTGGCAAGGC.............................................................................................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	2	0
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAGGACGAGACGCCACATTG.................................	20	1	2.00	2	0	0	0	0	0	0	0	0	2	0
......................................................................................................................................................................................TCTGTCTGA--------------------------------CTGGGATTCC..........................................................................................................................................................................................................................................................................................................	19	1	2.00	2	0	0	0	0	0	0	0	0	2	0
..AG------TCCTTGAGATTGTTGTCGT......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	3	1.33	4	0	0	0	0	0	0	0	0	4	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCGGCGGCGCATGGATG...........................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0
.................................................................................................................................................................................................................................................TTG-----------------GGAAATCGGATACGACTC............................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0
.......................................................................................................................................................................CTGCTGGAATGCGATTCTGTC.......................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................CGGCGCATGGATGTGGGGGT....................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	1	0
................................................................................................................................................................................................................................................................................ACGACTCAGTTTGTGGCAAGG..............................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
...................................................................................................................................................................................................................................................................................ACTCAGTTTGTGGCAAGGCG............................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0
................................................................................................................................................................TTCTGTCCTGCTGGAATGCGA..............................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0
........................................................................................................................................................................................................................................CGTCTTGCGTTG-----------------GGAAATCGG.....................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................CGGCGCATGGATGTGGGGGTT...................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
................................................................................................................................................................................................................................................GTTG-----------------GGAAATCGGATACGACTC............................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................C-TGTTTTACTTACGCGTCTCG..................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGATTCGGCGGCGCATGG..............................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	1	0
.......................................................................................TAGGTTC------------------------------------GGCCTC---------TTGCAAAG..........................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
............................................A-------------------AGATG-CG------GCGGCTTGGTAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0
A-AG------TCCTTGAGATTGTTGTCG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	3	1.00	3	0	1	0	0	0	0	1	0	1	0
........................................TCAAA-------------------AGATG-CG------GCGGCTTGG............................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.............TTGAGATTGTTGTCGATG---GC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	4	1.00	4	0	0	0	0	0	0	0	0	4	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCTGCATAGGACGAGACGCC.......................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
...................................................................TG-CG------GCGGCTTGGTAGGTTC------------------------------------G................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0
................................................................................................................................................................................TGCGATTCTGTCTGA--------------------------------CTGGGAA.............................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	1	0
..............................................................................................................................................................................AATGCGATTCTGTCTGA--------------------------------CTG.................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	1	0
............................................................................................................................................................................................................................................TTGCGTTG-----------------GGAAATCGGATACG................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	1	0
......................................................................................................................................................................................TCTGTCTGA--------------------------------CTGGGATTCCGT........................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0
.......................................................................................................................................................................................................................................CCGTCTTGCGTTG-----------------GGAAATCG......................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
...........................................................................................................................................................................................................................................CTTGCGTTG-----------------GGAAATCGGAA...................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0
..............................................................................................................................................................................AATGCGATTCTGTCTGA--------------------------------CTGG................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
.......................................................................................................................................................................................................................................................................................AGTTTGTGGCAAGGCGTAATG.......................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................CCTC---------TTGCAAAGGATGCGCTTC................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0
...........................................................................................................................................................................TGGAATGCGATTCTGTCTGA--------------------------------C...................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
...............................................................................................................................................................................................................................................................................................................................................................................TA--TATA----C-TGTTTTACTTACG.........................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................CGGCGCATGGATGTGGGGG.....................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................CTTCTGTCCTGCTGGAATGCG...............................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
..............................................................................................................................................................................AATGCGATTCTGTCTGA--------------------------------CTGGG...............................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	1	0
.....................................................................................................................................................................................TTCTGTCTGA--------------------------------CTGGGATTCC..........................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................TAAT---TA--TATA----C-TGTTTTACTT............................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGCTGCATAGGACGAGACGC........................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
...................................................................................................................................................................TGTCCTGCTGGAATGCGATT............................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0
.................................................................................................................................................................TCTGTCCTGCTGGAATGCG...............................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	1	0
...........................................................................................................................................................................................CTGA--------------------------------CTGGGATTCCGTCTTGCG..................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	1	0
.........................................CAAA-------------------AGATG-CG------GCGGCTTGG............................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0
............................................................................................................................................................................................................................................TTGCGTTG-----------------GGAAATCGGATAC.................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	1	0
......................................AGTCAAA-------------------AGATG-CG------GCGGCTT..............................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	3	0.67	2	0	2	0	0	0	0	0	0	0	0
................AGATTGTTGTCGATG---GCCAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	2	0.50	1	0	0	0	0	0	0	1	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGATTCGGCGGCGCATG...............................................................................................	19	2	0.50	1	0	0	0	0	0	0	0	0	1	0
......................................................................................................................................................................................................................................................................................................................................................................................................................GAAGCCCAGCGTTTGATTCGG........................................................................................................	21	6	0.50	3	0	0	0	0	0	0	0	0	3	0
..............TGAGATTGTTGTCGATG---GCCA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	4	0.50	2	0	2	0	0	0	0	0	0	0	0
.................................................................................................................................................TTGCAAAGGATGCGCTTC................................................................................................................................................................................................................................................................................................................................................................................	18	2	0.50	1	0	0	0	1	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................GATACGACTCAGTTTGTGGCA.................................................................................................................................................................................................................................................	21	2	0.50	1	0	1	0	0	0	0	0	0	0	0
................AGATTGTTGTCGATG---GCCAA............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	2	0.50	1	0	0	0	0	0	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTGATTCGGCGGCGCATG...............................................................................................	20	2	0.50	1	0	0	0	0	0	0	0	0	1	0
..............TGAGATTGTTGTCGATG---GCC..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	4	0.50	2	0	2	0	0	0	0	0	0	0	0
.......................................................................................................................................C---------TTGCAAAGGATGCGCTTCTG..............................................................................................................................................................................................................................................................................................................................................................................	21	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..................ATTGTTGTCGATG---GCCAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	2	0.50	1	0	0	0	0	0	0	1	0	0	0
...............GAGATTGTTGTCGATG---GCC..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	4	0.50	2	2	0	0	0	0	0	0	0	0	0
..................................GCCAAGTCAAA-------------------AGATG-CG------G....................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	3	0.33	1	0	1	0	0	0	0	0	0	0	0
...................................CCAAGTCAAA-------------------AGATG-CG------GCGG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	3	0.33	1	0	1	0	0	0	0	0	0	0	0
............................ATG---GCCAAGTCAAA-------------------AGATG-CG------.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	3	0.33	1	0	0	0	0	0	0	1	0	0	0
........................................................................................................................................................................................................................................................................AATCGGATACGACTCAGTTTC......................................................................................................................................................................................................................................................	21	3	0.33	1	0	0	0	0	0	0	0	0	1	0
.....................................AAGTCAAA-------------------AGATG-CG------GCGGC................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	3	0.33	1	0	0	0	0	0	0	0	0	1	0
....................................................................................................................................................................................ATTCTGTCTGA--------------------------------CTGGGATTC...........................................................................................................................................................................................................................................................................................................	20	3	0.33	1	0	0	0	0	0	0	0	0	1	0
...G------TCCTTGAGATTGTTGTCGAT.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..AG------TCCTTGAGATTGTTGTCG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..AG------TCCTTGAGATTGTTGTC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	3	0.33	1	0	0	0	0	0	0	0	0	1	0
..............TGAGATTGTTGTCGATG---GC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	4	0.25	1	0	0	0	0	0	0	0	0	1	0
..................................................................................................................................................................................CGATTCTGTCTGA--------------------------------CTGGGATC............................................................................................................................................................................................................................................................................................................	21	4	0.25	1	0	1	0	0	0	0	0	0	0	0
..........TCCTTGAGATTGTTGTCGATG---.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	4	0.25	1	0	0	0	0	0	0	0	0	1	0
........................................................................................................................................................GGATGCGCTTCTGTCCTGCT.......................................................................................................................................................................................................................................................................................................................................................................	20	4	0.25	1	0	1	0	0	0	0	0	0	0	0
.............TTGAGATTGTTGTCGATG---.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	4	0.25	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................CGCTTCTGTCCTGCTGGAAA..................................................................................................................................................................................................................................................................................................................................................................	20	4	0.25	1	0	0	0	0	0	0	1	0	0	0
...............GAGATTGTTGTCGATG---GC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	4	0.25	1	0	0	0	0	0	0	0	0	1	0
...............GAGATTGTTGTCGATG---GCCA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	4	0.25	1	0	1	0	0	0	0	0	0	0	0
............CTTGAGATTGTTGTCGATG---GCCA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	4	0.25	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................CGCTTCTGTCCTGCTGGAATT.................................................................................................................................................................................................................................................................................................................................................................	21	5	0.20	1	0	0	0	0	0	0	0	0	1	0
................AGATTGTTGTCGATG---GCCA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	5	0.20	1	0	1	0	0	0	0	0	0	0	0
...................TTGTTGTCGATG---GCCAAGTC.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	8	0.13	1	0	0	0	0	0	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................TTTACTTACGCGTCTCGAAG...............................................................................................................................	20	8	0.13	1	0	0	0	0	0	0	1	0	0	0
...........................................................................................................................................................TGCGCTTCTGTCCTGCTGGA....................................................................................................................................................................................................................................................................................................................................................................	20	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................AAGCCCAGCGTTTGATTCGG........................................................................................................	20	9	0.11	1	0	1	0	0	0	0	0	0	0	0
..................ATTGTTGTCGATG---GCCAAGTCG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	10	0.10	1	0	0	0	0	0	0	0	0	1	0
........................................................................................................................................................................................................................................................................................................................................................................................................CGCGTCTCGAAGCTGAAGCCC......................................................................................................................	21	13	0.08	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................ACTTACGCGTCTCGAAGCTGA...........................................................................................................................	21	15	0.07	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................CGTCTCGAAGCTGAAGCCC......................................................................................................................	19	17	0.06	1	0	0	0	0	0	0	0	0	1	0
..........................................................................................................................................................................................................................................................................................................................................................................................................CGTCTCGAAGCTGAAGCCCA.....................................................................................................................	20	17	0.06	1	0	0	0	0	0	0	1	0	0	0
..........................................................................................................................................................ATGCGCTTCTGTCCTGCTTTT....................................................................................................................................................................................................................................................................................................................................................................	21	19	0.05	1	0	1	0	0	0	0	0	0	0	0

droWil2

A-AA------TCTTTCAGATAGTTATCAATG---GCCAAGTCAAA-------------------TGTGGATG------ATGGCTTATTTGGATTAGGTTCTCCTCCAGCATAGGCCTTGGACTGTGCTTGAGGTTCTTCGGGTATTGGTATGGAATAGCTCTCAGTTTGTGTGGGATAGGCTTGTGTTTGA--------------------------------CTA------------------------------------------GGATAGGATTCGGT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
No Reads

droVir3

A-AA------TCCTTGAGATAGTTATCGATA---GCCAGGTCGAA-------------------GGATGACGCGGACTCTGGTTTTATCGAATTCGACTCGGGTGTCTCGTATGACTTGTCC------------------------------GGATATGCCTCCGTCTGCGTGGGATATGCCTCGGTCTGGGGCATGGGCAATGGCACTGGCTGGGGCTCGGGCTGGGACTCAGGCTCGGGCTC-----------------GGGCGCTGGATACGATTTGG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

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

No Reads

droMoj3

TGTGAAGAAGTCCGCT------------GTG---AGCAGTTGAAAAGAGAAAC-TCAATTGAAATTTGAAAC------ATGATCAAACCGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TT--TATA----C--TCTCTACTCACGCGTCTCGAAGCTGAAGCCTAGCGTTGGGTCTGGCGGCGTATTGA---------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droAna3

A-AG------TCCTTCAGGTAGTTGTCAATG---GCCAGGTCGAA-------------------GGTGGAGG------ATGGCTTGTCCGGTCCGGGTACGGAGTTGTCGTAAGTCTTTACCGGGGCCGGAGGAGG---------TGGCACGGGATACGATTCCGTTTGCGGGGCATACGACTCCGTGTGG--------------------------------CTGGGATAGGACTCCGAGGC---------------------GGTAGGATAGGACTCCTT----GG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
............................ATG---GCCAGGTCGAA-------------------GGTGCG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	2	0.50	1	0	0	0	0	1	0

droBip1

-GTGAAGAAGTCCGCT------------GTGGAATATAATTAAAAATATATATTTTAATTG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATTTTTTAAT---TA--AAAA----A-TTAGCTACTTACGCGTCTCGAAGCTAAAGCCTATTGTTGGATCTGGCGGTGTGTTGAGCATGGAGTTGTTAC------TAACATTG---CCGCTGCCCGT----GGGCGTTACATTGCC-------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

A-AG------TCCTTCAGATAGTTATCTATG---GCTAGATCAAA-------------------GTTGGACG------ATGGCTTGTCCGCTCCGGACTCCAGACTGCCGTAAGACTTGGCCTGCGGCTGTGG---------------GGACTGATAGGATTCCGTGATGCTGGGATAGGACTCGGTCTGG--------------------------------CTGGGATAGGACTCTGTGATGCTGGGATAGGACTCTTTGTGGCTGGGATAGGACTCCGT----GG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

A-AG------TCCTTCAGGTAGTTATCGATG---GCCAGATCGAA-------------------GGTTGAGG------ATGGCTTGTCGGGACCCGATTCGGGTGCTCCATATGGCTTCACCTCCGGCTGGGGCTG---------TGGCACAGGACTC------------GGCTGATAGGACTCGGTCTGG--------------------------------CTGGGATACGATTCCGTGATGCTGGGATAGGAATCCT------TGGGATACGATTCCGT----GA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

A-GA------TATTTTGGCTAT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGTTTTGACCATTATGTATGTGTATATAACG-TCTTCTACTTACGCGTCTCAAAACTAAAGCCCAGCGTTGGATCTGGCGGCGTATTGAGCATGGAGTTGCCGACATTGCCGACATTG---CCGCTGCCCGT----GGGCGTTACATTGCC-------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

T-AA------GTTTATACGTGAT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A--TAT-----C-TATTTTACTTACGCGTCTCAAAACTAAAGCCCAGCGTTGGATCTGGCGGCGTGTTGAGCATGGAGTTGCCGACATT--------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

A-AG------TCCTTCAGGTAGTTATCAATG---GCCAGGTCGAA-------------------GGTGGAGG------ATGGCTTATCGGGACCCGATTCGGGGCCACCATATGGCTTGACCTGCGGCTGTGGCTC---------CGGCACAGGGTAGGCCTCCGTGCGGGGTTGATAGGACTCGGTTTGG--------------------------------CTGGGATATGACTCCGTGATGCTGGGATAAGAGTCCTTGTGGCTGGGATACGACTCCGT----GG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droTak1

-GTGAAGAAGTCCGCT------------GTTGGA-----------------AG-GGAA-G----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAGCAT--GAGTTATGATTAAAATAAA-ATATATATGAAT-TGATTTACTTACGCGTCTCGAAGCTAAAGCCAAGCGTTGGATCTGGCGGCGTGTTGAGCATGGAGTTG----------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

A-C------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTTATACTTACGCGTCTCGAAACTAAAGCCCATCGTTGGGTCTGGCGGCGTGTTGAGCATGGAATTGCTGACATT--------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

dm3

-GTGAAGAAGTCCGCT------------ATCGAA-----------------AT-AAAAATGAAATTTTA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAATTATAACCAAAATAAATA--TATG----TG-CTAGTACTTACGCGTCTCGAAGCTGAAGCTCAGCGTTGGGTCCGGTGGCGTGTTGAGCATGGAGTTGCTGACATT--------------------------------------------------------------------------	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
........................................................................................................................................................................................................................................................................................................................................................................................................................AGCTCAGCGTTGGGTCCGGTGA.....................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................GGCGTGTTGAGCATGGAGT....................................................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................AAATGAAATTTTA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAATTCC................................................................................................................................................................................	21	11	0.09	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droSim2

-GTGAAGAAGTCCGCT------------ATGGTA-----------------AT-AAAAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAATTTTGAAGTTATATCCAAAATAAATA--TGTG----TG-CCAGTACTTACGCGTCTCGAAGCTGAAGCTCAGCGTTGGGTCCGGCGGCGTGTTGAGCATGGTGTTGCTGACATT--------------------------------------------------------------------------

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

-GTGAAGAAGTCCGCT------------ATGGAA-----------------AT-AAAAAT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAATTTTGAAGTTATAACCAAAATAAATA--TGTG----TG-CCAGTACTTACGCGTCTCAAAGCTGAAGCTCAGCGTTGGGTCCGGCGGCGTGTTGAGCATGGAGTTGTTGACATT--------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

droYak3

-GTGAAGAAGTCCGCT------------GTGCAA-----------------AT-AAAA-C----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAATTTTATAATTATAAGTAAAATGCATATATATG----TG-CTGGTACTTACGCGTCTCGAAGCTGAAGCTCAGCGTTGGGTCTGGCGGCGTGTTGAGCATGGAGTTGCTGACATT--------------------------------------------------------------------------

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

No Reads

droEre2

-GTGAAGAAGTCCGCT------------GTGGAA-----------------AT-ATAAGCAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGCCTTGTAGTTATAACCAAAATAAATA--TACG----TG-CCAATACTTACGCGTCTCGAAGCTGAAGCTCAGCGTTGGGTCTGGCGGCGTGTTGAGCATGGAGTTGCTGACATTG------------CCGCTGCCCGT----GGGCGTCACGTTGCC-------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

dpe_1737

scaffold_5:562643-562925 +

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

-44.3	-44.1	-44.1