ID:

dvi_456

 Coordinate:

scaffold_13042:3565327-3565401 -

 Confidence:

candidate

 Class:

Canonical miRNA

 Genomic Locale:

intergenic

 [View on UCSC Genome Browser {Cornell Mirror}]
Legend: mature star mismatch in alignment mismatch in read

Predicted structure

-28.9 -28.9 -28.7

Flybase annnotation

intergenic

Repeatable elements

NameClassFamilyStrand
Gypsy-22_DWil-I-intLTRGypsy-
(TA)nSimple_repeatSimple_repeat+
mature

  1. dvi_240  scaffold_12970:3041393-3041414 +
  2. dvi_360  scaffold_12970:10161063-10161084 -
  3. dvi_456  scaffold_13042:3565380-3565401 -
star

Sense Strand Reads

AGTATGCACACGCTAGCGTGTTTCTACAACAATTTCCATCAATTTCATCATATGTATGTATATTTGTGTATAAGTATATATATATATATATGTATACATATATTCATGGGTATATATATATATGTATATGTATATATGTGGCAGACGCCGAGTTTTGTTTGTATAAGTTCAAGAG

***********************************.............((((((((((((((((((((((((.((((((((((....)))))))))).))))..))))))))))))))))))))................*********************************** 		Read size # Mismatch Hit Count Total Norm Total M047

female body

 SRR060681

Argx9_testes_total

 SRR060679

140x9_testes_total

 SRR2096014

Ovary_Strain_160_oxidized		 SRR2096013

Ovary_Strain_9_oxidized		 SRR060677

Argx9_ovaries_total

 V116

male body		 SRR2096056

Ovary_Min_46		 SRR060676

9xArg_ovaries_total

 V053

head

 SRR060680

 9xArg_testes_total

 SRR060678

9x140_testes_total

 SRR060672

9x160_females_carcasses_total

 SRR060675

140x9_ovaries_total

 SRR060674

9x140_ovaries_total

 SRR060664

9_males_carcasses_total

 SRR2096055

Ovary_Min_43		 SRR2096057

Ovary_Min_50		 SRR060689

160x9_testes_total

 SRR060656

9x160_ovaries_total

 SRR060668

160x9_males_carcasses_total

 SRR060666

160_males_carcasses_total

 SRR060667

160_females_carcasses_total

 M061

embryo

 SRR1106730

embryo_16-30h

 SRR060665

9_females_carcasses_total

 SRR060669

160x9_females_carcasses_total

 SRR2096060

Ovary_Min_193		 V047

embryo

 M028

head

 SRR060658

140_ovaries_total

 SRR060688

160_ovaries_total

 SRR1106724

embryo_12-14h

 SRR2096059

Ovary_Min_164		 SRR060654

160x9_ovaries_total

 SRR2096081

embryo_0-2h from 15to16 day old nondysgenic mothers		 SRR060687

9_0-2h_embryos_total
..................................................TATGTATGTATATTTGTGTATA....................................................................................................... 22 0 3 43.67 131 30 13 9 11 11 6 7 2 3 3 3 4 2 3 3 2 3 4 0 0 0 2 1 1 2 1 1 0 0 1 0 1 1 1 0 0 0
..................................................TATGTATGTATATTTGTGTAT........................................................................................................ 21 0 4 39.00 156 38 19 15 2 0 10 7 0 6 9 4 6 6 4 2 3 3 0 5 4 3 1 2 0 0 1 1 2 1 0 0 0 0 0 1 1 0
...................................................ATGTATGTATATTTGTGTATA....................................................................................................... 21 0 3 5.67 17 14 0 0 0 0 0 0 1 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0
..................................................TATGTATGTATATTTGTGTATAA...................................................................................................... 23 0 1 3.00 3 0 0 0 0 0 0 0 2 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
...................................................ATGTATGTATATTTGTGTAT........................................................................................................ 20 0 4 1.50 6 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
....................................................TGTATGTATATTTGTGTATA....................................................................................................... 20 0 4 1.25 5 3 1 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..................................................TATGTATTTATATTTGTGTATA....................................................................................................... 22 1 4 1.00 4 0 0 0 3 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
...................................................ATGTATGTATATTTGTGTATAA...................................................................................................... 22 0 1 1.00 1 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.................................................ATATGTATGTATATTTGTGTAT........................................................................................................ 22 0 1 1.00 1 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
..................................................TATGTATGTATATTTGTGTA......................................................................................................... 20 0 4 0.75 3 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.....................................................GTATGTATATTTGTGTATA....................................................................................................... 19 0 4 0.50 2 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.....................................................GTATGTATATTTGTGTAT........................................................................................................ 18 0 5 0.40 2 1 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
..................................................GATGTATGTATATTTGTGTATA....................................................................................................... 22 1 3 0.33 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0
..................................................TATGTATGTATATTTGCGTATA....................................................................................................... 22 1 3 0.33 1 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
..................................................TATGTATGTATATTTCTGTATA....................................................................................................... 22 1 4 0.25 1 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..................................................TATCTATGTATATTTGTGTATA....................................................................................................... 22 1 4 0.25 1 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..................................................CATGTATGTATATTTGTGTATA....................................................................................................... 22 1 4 0.25 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..................................................TATTTATGTATATTTGTGTATA....................................................................................................... 22 1 5 0.20 1 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
....................................................TGTATGTATATTTGTGTA......................................................................................................... 18 0 5 0.20 1 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
.................................................CTATGTATGTATATTTGTGTAT........................................................................................................ 22 1 5 0.20 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..................................................TATGTATGTATATTTGTTTATA....................................................................................................... 22 1 5 0.20 1 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
..................................................TATGTATGTATATTTGTGTATAG...................................................................................................... 23 1 5 0.20 1 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
..................................................TATGAATGTATATTTGTGTAT........................................................................................................ 21 1 6 0.17 1 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
..................................................TATGTATGTATATTTTTGTATA....................................................................................................... 22 1 6 0.17 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 1 0 0 0 0 0 0 0 0
......................................................TATGTATATTTGTGTATA....................................................................................................... 18 0 6 0.17 1 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
.................................................TTATGTATGTATATTTGTGTAT........................................................................................................ 22 1 7 0.14 1 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
..................................................TATGTACGTATATTTGTGTAT........................................................................................................ 21 1 8 0.13 1 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
.................................................TTATGTATGTATATTTGTGTA......................................................................................................... 21 1 8 0.13 1 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
..................................................TATGTATGTATATTTGTGCATA....................................................................................................... 22 1 9 0.11 1 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..................................................TATGTATGTATATTTGTGTATT....................................................................................................... 22 1 9 0.11 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
................................................TATATGTATGTATATTTGTGTAT........................................................................................................ 23 1 12 0.08 1 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
..................................................TATGTATGTATATTTGTG........................................................................................................... 18 0 12 0.08 1 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
..................................................TATGTATGTATATTTGTGT.......................................................................................................... 19 0 12 0.08 1 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
...................................................ATGTATGTATATTTGTGT.......................................................................................................... 18 0 13 0.08 1 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
....................................................TGTATGTATATTTGTGT.......................................................................................................... 17 0 16 0.06 1 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
.....................................................GTATGTATGTTTGTGTATA....................................................................................................... 19 1 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1
..................................................TATGTATATATATTTGTGTATA....................................................................................................... 22 1 20 0.05 1 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0

Anti-sense strand reads

TCATACGTGTGCGATCGCACAAAGATGTTGTTAAAGGTAGTTAAAGTAGTATACATACATATAAACACATATTCATATATATATATATATACATATGTATATAAGTACCCATATATATATATACATATACATATATACACCGTCTGCGGCTCAAAACAAACATATTCAAGTTCTC

***********************************.............((((((((((((((((((((((((.((((((((((....)))))))))).))))..))))))))))))))))))))................*********************************** 		Read size # Mismatch Hit Count Total Norm Total SRR060672

9x160_females_carcasses_total

 SRR060679

140x9_testes_total

 SRR060666

160_males_carcasses_total

 SRR060686

Argx9_0-2h_embryos_total

 V116

male body		 SRR060684

140x9_0-2h_embryos_total

 SRR060681

Argx9_testes_total

 SRR060659

Argentina_testes_total

 SRR060667

160_females_carcasses_total

 GSM1528803

follicle cells		 SRR060683

160_testes_total
.........TTCGATCGCACAAAGATGG................................................................................................................................................... 19 2 2 1.00 2 1 1 0 0 0 0 0 0 0 0 0
.........................TGTTGTTAAAGGTAGTGAG................................................................................................................................... 19 2 5 0.40 2 0 0 0 1 1 0 0 0 0 0 0
..................................AAGTAGTCAAAGTAGTATACA........................................................................................................................ 21 2 4 0.25 1 1 0 0 0 0 0 0 0 0 0 0
...TATATGTTCGATCGCACAAAG....................................................................................................................................................... 21 3 6 0.17 1 0 0 1 0 0 0 0 0 0 0 0
.................................AACGTAGTCAAAGTAGTAAACA........................................................................................................................ 22 3 7 0.14 1 0 0 0 0 0 1 0 0 0 0 0
...............................................................................................................................................CGGCGGCTCCAAACAAACGT............ 20 3 10 0.10 1 0 0 0 0 0 0 1 0 0 0 0
...............................TAAAGGAAGTTACAGTAG.............................................................................................................................. 18 2 14 0.07 1 0 0 0 0 0 0 0 1 0 0 0
........................................................................TCATATATATATATATATACATA................................................................................ 23 0 19 0.05 1 0 0 0 0 0 0 0 0 1 0 0
...........................TTGTTAAAGGTAGTGAGAGG................................................................................................................................ 20 3 19 0.05 1 0 0 1 0 0 0 0 0 0 0 0
........................................................................................................................................ACCCCCTCTGCGGCCCAA..................... 18 3 20 0.05 1 0 0 0 0 0 0 0 0 0 0 1
........................................................................TCATATATATATATATAT..................................................................................... 18 0 20 0.05 1 0 0 0 0 0 0 0 0 0 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Type Alignment
droVir3 scaffold_13042:3565277-3565451 - dvi_456 candidate AGTATG-----CACAC--GCTA---G--C----G--------TGTT----TCTACA--A--------------------------------------------C----------AATTTCCA------------TCAATTTCATCATATGTATGTATA--T----------------------T--------------------------------------------TGTGTATAAGT----------------ATATATATATATATATGTATACATATA--T-----------TCATGGG-----------------------------------------------------------------TATATATATATATGTATATGTAT------------------------ATATGTGGCAGAC---GCCGAGTTTTGTTTGTAT--AAGTTCAAGA-----------G
droMoj3 scaffold_6496:8939228-8939391 + AGTATA--A--CACAAATATTTTGAG--C----T--------TATT----TATACAAAT-------A--------CT----------------TTTCTTGAA----------AGAGCACACA------------T--------------------------------------ATAT------ATATATAT-------------------------------ATATAT-----------------------ATAT------ATATATATAT----------ATATA----TATATA-----------TA---------------------------TATATATATATATAT----ATA----------------------T----------------------------------ATATA-TATA---------------TATATATAT--ATATATATATAGTATAAATTAG
droGri2 scaffold_15245:5230998-5231159 - ATAA-A-----AAC----GCTA---A--G----A---GTGCC---ATTAA-----A-ACGATTT--ATATGTAAT--AA--------------ATTATTGA--A----------ATTATACATATTAATAAACATAT----------------------------------------------ATAAATA------------------------------------------AA----------------TAC--------ATATATATATAT--------ATGTA-----------TATATATATAT-------------------------------ATATATATATAT----------------------------------ATAT--------------------------GCATACATGG---------------TAATTGGAT--ATATTTAAAA-----------A
droWil2 scf2_1100000004590:1152814-1152973 - ATTATA-----TACAT--ACAA---A--T----T-----AA-AACA----GATATA------------------------------------------------------------TATATATG--------------------------TATATACA--T----------------ATATATATATATAT-------------------------------GTATA-------T----------------------ACATATATATATAT--------------ATATATATATA-----------TATA----------------TATATATAT---GTAT------------ATAC----------------ATATA-----------TATATATATATAT-----------ATAT-------AT---------ATATATTTACAT--AAATGCAAAA-----------G
dp5 XL_group3a:1256508-1256652 - AGCATG-----G-CAC--GCCA---G--C----A--------TTTC----CATAGAAAT-------ACCCATAAC--AAAATTGATAGTATCT-----------------------CTTAC---------------------------------------A----------------------A--------------------------------------------TATACATAAAT----------------ATATATATATATATATATATATATATA--T-----------ACATATA-----------------------------------------------------------------TATATGTATATCTGT------------------------------------------------------TT--CTGTATCT--GTAT------AACG----ACGC
droPer2 scaffold_13:1190101-1190240 - AATATA-----CATTC--A--T---A--G----T-----TC-TACA----AATAGC---------------------TAAGTTTATCGTTTAT-----------------------CATATAT-----------------------CATTTATCGTTA--T----------------------C--------------------------------------------TATATATATAT----------------ATATATATATATATATATATATATATA--T-----------ATATATATATA-----------------------------------------------------------------TATATATATATATATATAT------------------------ATA----------------------------------------------------TAT
droAna3 scaffold_13250:2996419-2996573 - ACCTTG-----CACAT--GTAT---A--T----G--------TATA----TGTATA--T--------------------------------------------G----------TATATGTA------------T-------------TGTATATGTA--TATGTATATGTATGTAT------ATGTATAT-------------------------------GTATAT-----------------------GTAT------ATGTATATGT----------ATATG---------------------------------------------TATAT---GTATATGTATAT----GTA----------------------T-------------ATGTAT---------------ATGTA-TATG---------------TATATATAT--ATGTATATGT-----------A
droBip1 scf7180000392928:5453-5614 - GATATG-----TATAT--GTAT---A--T----G--------TATA----TGTATA--T--------------------------------------------G----------TATATGTA------------T------------------------------------------------------ATGTATATGTATATGTATATGTATATGTATATG--------------------TATATGTATATGT------ATATGTATAT----------GTA-------------------------------------------TATGTATAT---GTATATGT----------------------------ATATG-----------TATATGTATATGT-----------ATAT-------GT---------ATATGTATATGT--ATATGTATAT-----------G
droKik1 scf7180000302475:752811-752967 + TATGCA--T--AGCTT--GCTT---G--C----T--------CTCG----C----ACAC-------A--------GT----------------TTTCTTGTC------------------TGCTCAAAT-AA--------------CATTTA-------------------------------G----------------------------------------------TATATAGGTGTATATATATATATAT----------------ATATATATATA--T-----------ATATGTATATA--------------------------TAT---AGATTTGTATAT----ATG----------------------T----------------------------------AAAGT-GATGCAT-------------TCGCCGAT--GCAC------AGTT----TTGT
droFic1 scf7180000453872:622756-622920 + AATATG-----CAAAT--ACAA---A--T----T------CA---ATTTA-----C-CCAAATC-----------------------------------------------------GTATGAA----------------------CAAATAACGCAATCT----------------------T----------------------------------------------TATATACATATATATATATATATAT----------------ATAAATATATA--T-----------ATATTTATATA------------------------TATAA---ACACAAGTATAT----AT----------------------------------------------------------ATGTGAAGTACAT---ATAAAGTTAAATATAAGC--ATAAACCCAA-----------G
droEle1 scf7180000490712:25917-26071 - TATATA-----AAC----GATA---A-------T------GT---ATTGA-----T-GATATTC-----------------------------------------------------ATATATT----------------------TATATATTTATATAT----------------------TTATATAT----------------------------------------------TTATATATTTATATATTT------ATATATTTAT----------ATATT----TATATA-----------------------------------TTTAT---ATATTTATATAT----TTA----------------------T----------------------------------ATATT-TATATAT---------TTATATATTTAT--ATATTTATAT-----------A
droRho1 scf7180000770833:758-879 - AAATTT-------TTT--GTAT---A----------------------------------------------------------------------------------------------------------------------------TA--------TCTATATATGTATATAC------ATATATAT-------------------------------GTATAT-----------------------ATGT------ATATATGTAT----------ATATG----TATATA-----------TG---------------------------TATATATGTATATAT----GTA----------------------T----------------------------------ATATG-TATA---------------TATGTATAT--ATGTATATAT-----------G
droBia1 scf7180000300750:1587-1788 - AATT-AT-G--TTCAT--ATAT---G--T----A--------TATA----TATATA--A--------------------------------------------ATATTTATATAAATATATATA----------------------TATATATTTATA--T----------------TTATATATATATAT-------------------------------TT---------------------------ATAT--ATATATTTAT--------------ATTTATATATATTTA-----------TATT--------------------TTTAT---ATATTTAT--------ATATATATATTTATATATATATCTA------------------------TATATATATTTATTTATATTT-ATATT---TATTT--ATATTTAT--ATTT------ATTT----ATAT
droTak1 scf7180000413898:7313-7442 - ATCAGA-----TGTCT--A--------------------------------------------------------------------------------------------------------------------------------ATGTATATATA--C----------------------C--------------------------------------------TATATATGTAT----------------ATATATATACCTATATATGTGCATATA--T-----------ACCTATA-----------------------------------------------------------------TATTTATATATGTATATATGTAT---ATATAT---------------TA-------GGGC--G---G--GT--CGATTTGTATGGG-GCCGAA-----------A
droEug1 scf7180000409105:509-672 - ATTT-ATAATGTATAT--ATTT---A--T----A--------TGTT----TATTTA--T------------------------------------------TTA----------TTTATATATT----------------------TTTATATTTATATAT----------------------TTATATAT-------------------------------TTATA---------------TATTTATATATTT------ATATATTTAT----------ATATT----TATATA-----------------------------------TTTAT---ATATTTATATAT----TTA----------------------T----------------------------------ATATT-TATATAT---------TTATATATTTAT--ATATTTATAT-----------A
dm3 chrUextra:5485416-5485582 - AATAAA-----CGGTC--GCTT---G--C----G--------ATCT----TCA------AAATCAAATCGATAAC--TGTA------------ATTAT---TAA----------CTTATATATG------------------------------TATA--------TATGTATATAT------GTATATAT-------------------------------GTATAT-----------------------ATGT------ATATATGTAT----------ATATG----TATATA-----------TG---------------------------TATATATGTATATAT----GTA----------------------T----------------------------------ATATG-TATA---------------TATGTATAT--ATGTATATAT-----------G
droSim2 2r:14741047-14741182 + AACA-A-----TATTT--GAAA---ATATCATTG--------AACA----CATGTG--G--------------------------------------------ACCTTTC------CACACA------------T--------------------------------------------------ATATAT-------------------------------ATA-------TA----------------TATAT------ATATATATAT----------ATATA-----------TATATATATAT-------------------------------ATATATATATAT----ATA----------------------T----------------------------------ATACTGAAGA---------------CATATATAT--ATATATATAT-----------A
droSec2 scaffold_1190:2850-3010 + GTA-TG-----TACAT--ACTT---A--T----A--------TGTA----TATACT--T--------------------------------------------A----------TATGTATAT------------------------------------------------------------------ACTTATATGTATATACTTATATGTATATACTTA------------------------CATGTA-------------------------------------------------------TATACTTATATGTATATACTTATATGTAT---ATACTTAC----------------------------ATGTA------------------------TAT--------ACTTA---TATGT---ATATAATTATATGTATAT--AATTACTCGA-----------G
droYak3 v2_chrUn_003:246333-246502 - GTAT-G-----TATAT--ATAT---A--T----A--------TGTA----TATATA--T--------------------------------------------G----------TATATATAT------------------------------------------------------------------GTATATATATGTATATATATGTATATATATGTA--------------------------------------------------------------------TATATA-----------TGTATATATATGTATATATATGTATATAT---ATGT----------------------------ATATATATG------------------------TATATATATGTATATATATGT-ATATA---TATGT--ATATATAT--GTAT------ATAT----ATGT
droEre2 scaffold_4929:25899069-25899249 + TGAATG-----TACAT--ATAT---G--GAATCTAAT----ATATA----TGTATA--T--------------------------------------------T----------AATATATA------------TAT----------------------------------------------ATATATA------------------------------------------TA----------------TATATATAT--ATATAT--------------ATATA-----------TATATATATATA-------------------------------TATATATATATATATATATATATATGTATATATATATGTA------------------------TGTATATGAGTGTATATGTTGAATATG---AATTG--CTGTGTAT--GATTCAAATG-----------G

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droVir3
AGTATG-----CACAC--GCTA---G--C----G--------TGTT----TCTACA--A--------------------------------------------C----------AATTTCCA------------TCAATTTCATCATATGTATGTATA--T----------------------T--------------------------------------------TGTGTATAAGT----------------ATATATATATATATATGTATACATATA--T-----------TCATGGG-----------------------------------------------------------------TATATATATATATGTATATGTAT------------------------ATATGTGGCAGAC---GCCGAGTTTTGTTTGTAT--AAGTTCAAGA-----------GSizeHit CountTotal NormTotalM027

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		SRR2096013

Ovary_Strain_9_oxidized		SRR2096014

Ovary_Strain_160_oxidized		SRR2096026

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096038

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096050

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096055

Ovary_Min_43		SRR2096056

Ovary_Min_46		SRR2096057

Ovary_Min_50		SRR2096058

Ovary_Min_98		SRR2096059

Ovary_Min_164		SRR2096060

Ovary_Min_193		SRR2096061

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096072

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096079

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096080

embryo_0-2h from 15to16 day old nondysgenic mothers		SRR2096081

embryo_0-2h from 15to16 day old nondysgenic mothers
..................................................................................................................................................TATGTATGTATA--T----------------------T--------------------------------------------TGTGTATA.............................................................................................................................................................................................................................................22343.6713101301000000000021210100203336493130000001000000000000010000020370111100032401000000
..................................................................................................................................................TATGTATGTATA--T----------------------T--------------------------------------------TGTGTAT..............................................................................................................................................................................................................................................21439.0015600380104000000031123100602461061541900000005000000000000000000019700200030000200001
...................................................................................................................................................ATGTATGTATA--T----------------------T--------------------------------------------TGTGTATA.............................................................................................................................................................................................................................................2135.671700140000010000000000000100000000000000000000000000000000000000000000001000000000
..................................................................................................................................................TATGTATGTATA--T----------------------T--------------------------------------------TGTGTATAA............................................................................................................................................................................................................................................2313.0030000000000000000000000000000001000000000000000000000000000000000000002000000000
...................................................................................................................................................ATGTATGTATA--T----------------------T--------------------------------------------TGTGTAT..............................................................................................................................................................................................................................................2041.5060060000000000000000000000000000000000000000000000000000000000000000000000000000
....................................................................................................................................................TGTATGTATA--T----------------------T--------------------------------------------TGTGTATA.............................................................................................................................................................................................................................................2041.2550030000000000010000000000000000100000000000000000000000000000000000000000000000
...................................................................................................................................................ATGTATGTATA--T----------------------T--------------------------------------------TGTGTATAA............................................................................................................................................................................................................................................2211.0010000000000000000000000000010000000000000000000000000000000000000000000000000000
.................................................................................................................................................ATATGTATGTATA--T----------------------T--------------------------------------------TGTGTAT..............................................................................................................................................................................................................................................2211.0010010000000000000000000000000000000000000000000000000000000000000000000000000000
..................................................................................................................................................TATGTATGTATA--T----------------------T--------------------------------------------TGTGTA...............................................................................................................................................................................................................................................2040.7530000000000000000000000000000000000000000000000000000000000000000000003000000000
.....................................................................................................................................................GTATGTATA--T----------------------T--------------------------------------------TGTGTATA.............................................................................................................................................................................................................................................1940.5020000000000000000000000000000000000000000000000000000000000000000200000000000000
.....................................................................................................................................................GTATGTATA--T----------------------T--------------------------------------------TGTGTAT..............................................................................................................................................................................................................................................1850.4020010000000000000001000000000000000000000000000000000000000000000000000000000000
....................................................................................................................................................TGTATGTATA--T----------------------T--------------------------------------------TGTGTA...............................................................................................................................................................................................................................................1850.2010000000000000010000000000000000000000000000000000000000000000000000000000000000
..................................................................................................................................................TATGTATGTATA--T----------------------T--------------------------------------------TGTGTATAG............................................................................................................................................................................................................................................2350.2010000000000000000000000000000000000000000000000000000000000000000100000000000000
......................................................................................................................................................TATGTATA--T----------------------T--------------------------------------------TGTGTATA.............................................................................................................................................................................................................................................1860.1710000000000000000000000000000000000000000000000000000000000000000100000000000000
..................................................................................................................................................TATGTATGTATA--T----------------------T--------------------------------------------TGTGTATT.............................................................................................................................................................................................................................................2290.1110000000000000000000000000000000000000000000000000000000000000000000010000000000
..................................................................................................................................................TATGTATGTATA--T----------------------T--------------------------------------------TGTG.................................................................................................................................................................................................................................................18120.0810000000000000000000000000000000100000000000000000000000000000000000000000000000
..................................................................................................................................................TATGTATGTATA--T----------------------T--------------------------------------------TGTGT................................................................................................................................................................................................................................................19120.0810000000000000000000000000000100000000000000000000000000000000000000000000000000
...................................................................................................................................................ATGTATGTATA--T----------------------T--------------------------------------------TGTGT................................................................................................................................................................................................................................................18130.0810010000000000000000000000000000000000000000000000000000000000000000000000000000
....................................................................................................................................................TGTATGTATA--T----------------------T--------------------------------------------TGTGT................................................................................................................................................................................................................................................17160.0610000000000000000000000000000000000000000000000000000000000001000000000000000000
droMoj3
AGTATA--A--CACAAATATTTTGAG--C----T--------TATT----TATACAAAT-------A--------CT----------------TTTCTTGAA----------AGAGCACACA------------T--------------------------------------ATAT------ATATATAT-------------------------------ATATAT-----------------------ATAT------ATATATATAT----------ATATA----TATATA-----------TA---------------------------TATATATATATATAT----ATA----------------------T----------------------------------ATATA-TATA---------------TATATATAT--ATATATATATAGTATAAATTAGSizeHit CountTotal NormTotalM046

Female-body		V041

Embryo		V049

Head		V056

Head		M060

Embryo		V110

Male-body
No Reads
droGri2
ATAA-A-----AAC----GCTA---A--G----A---GTGCC---ATTAA-----A-ACGATTT--ATATGTAAT--AA--------------ATTATTGA--A----------ATTATACATATTAATAAACATAT----------------------------------------------ATAAATA------------------------------------------AA----------------TAC--------ATATATATATAT--------ATGTA-----------TATATATATAT-------------------------------ATATATATATAT----------------------------------ATAT--------------------------GCATACATGG---------------TAATTGGAT--ATATTTAAAA-----------ASizeHit CountTotal NormTotalM041

Female-body		V109

Male-body
No Reads
droWil2
ATTATA-----TACAT--ACAA---A--T----T-----AA-AACA----GATATA------------------------------------------------------------TATATATG--------------------------TATATACA--T----------------ATATATATATATAT-------------------------------GTATA-------T----------------------ACATATATATATAT--------------ATATATATATA-----------TATA----------------TATATATAT---GTAT------------ATAC----------------ATATA-----------TATATATATATAT-----------ATAT-------AT---------ATATATTTACAT--AAATGCAAAA-----------GSizeHit CountTotal NormTotalM020

Head		M045

Female-body		V117

Male-body		V118

Embryo		V119

Head
No Reads
dp5
AGCATG-----G-CAC--GCCA---G--C----A--------TTTC----CATAGAAAT-------ACCCATAAC--AAAATTGATAGTATCT-----------------------CTTAC---------------------------------------A----------------------A--------------------------------------------TATACATAAAT----------------ATATATATATATATATATATATATATA--T-----------ACATATA-----------------------------------------------------------------TATATGTATATCTGT------------------------------------------------------TT--CTGTATCT--GTAT------AACG----ACGCSizeHit CountTotal NormTotalM022

Male-body		M040

Female-body		M059

Embryo		M062

Head		V043

Embryo		V051

Head		V112

Male-body		SRR902010

Ovary		SRR902011

Testis		SRR902012

CNS imaginal disc
No Reads
droPer2
AATATA-----CATTC--A--T---A--G----T-----TC-TACA----AATAGC---------------------TAAGTTTATCGTTTAT-----------------------CATATAT-----------------------CATTTATCGTTA--T----------------------C--------------------------------------------TATATATATAT----------------ATATATATATATATATATATATATATA--T-----------ATATATATATA-----------------------------------------------------------------TATATATATATATATATAT------------------------ATA----------------------------------------------------TATSizeHit CountTotal NormTotalM021

Embryo		M042

Female-body		V042

Embryo		V050

Head		V057

Head		V111

Male-body
No Reads
droAna3
ACCTTG-----CACAT--GTAT---A--T----G--------TATA----TGTATA--T--------------------------------------------G----------TATATGTA------------T-------------TGTATATGTA--TATGTATATGTATGTAT------ATGTATAT-------------------------------GTATAT-----------------------GTAT------ATGTATATGT----------ATATG---------------------------------------------TATAT---GTATATGTATAT----GTA----------------------T-------------ATGTAT---------------ATGTA-TATG---------------TATATATAT--ATGTATATGT-----------ASizeHit CountTotal NormTotalM044

Female-body		M058

Embryo		V039

Embryo		V055

Head		V105

Male-body		V106

Head
No Reads
droBip1
GATATG-----TATAT--GTAT---A--T----G--------TATA----TGTATA--T--------------------------------------------G----------TATATGTA------------T------------------------------------------------------ATGTATATGTATATGTATATGTATATGTATATG--------------------TATATGTATATGT------ATATGTATAT----------GTA-------------------------------------------TATGTATAT---GTATATGT----------------------------ATATG-----------TATATGTATATGT-----------ATAT-------GT---------ATATGTATATGT--ATATGTATAT-----------GSizeHit CountTotal NormTotal
No Reads
droKik1
TATGCA--T--AGCTT--GCTT---G--C----T--------CTCG----C----ACAC-------A--------GT----------------TTTCTTGTC------------------TGCTCAAAT-AA--------------CATTTA-------------------------------G----------------------------------------------TATATAGGTGTATATATATATATAT----------------ATATATATATA--T-----------ATATGTATATA--------------------------TAT---AGATTTGTATAT----ATG----------------------T----------------------------------AAAGT-GATGCAT-------------TCGCCGAT--GCAC------AGTT----TTGTSizeHit CountTotal NormTotal
No Reads
droFic1
AATATG-----CAAAT--ACAA---A--T----T------CA---ATTTA-----C-CCAAATC-----------------------------------------------------GTATGAA----------------------CAAATAACGCAATCT----------------------T----------------------------------------------TATATACATATATATATATATATAT----------------ATAAATATATA--T-----------ATATTTATATA------------------------TATAA---ACACAAGTATAT----AT----------------------------------------------------------ATGTGAAGTACAT---ATAAAGTTAAATATAAGC--ATAAACCCAA-----------GSizeHit CountTotal NormTotal
No Reads
droEle1
TATATA-----AAC----GATA---A-------T------GT---ATTGA-----T-GATATTC-----------------------------------------------------ATATATT----------------------TATATATTTATATAT----------------------TTATATAT----------------------------------------------TTATATATTTATATATTT------ATATATTTAT----------ATATT----TATATA-----------------------------------TTTAT---ATATTTATATAT----TTA----------------------T----------------------------------ATATT-TATATAT---------TTATATATTTAT--ATATTTATAT-----------ASizeHit CountTotal NormTotal
No Reads
droRho1
AAATTT-------TTT--GTAT---A----------------------------------------------------------------------------------------------------------------------------TA--------TCTATATATGTATATAC------ATATATAT-------------------------------GTATAT-----------------------ATGT------ATATATGTAT----------ATATG----TATATA-----------TG---------------------------TATATATGTATATAT----GTA----------------------T----------------------------------ATATG-TATA---------------TATGTATAT--ATGTATATAT-----------GSizeHit CountTotal NormTotal
No Reads
droBia1
AATT-AT-G--TTCAT--ATAT---G--T----A--------TATA----TATATA--A--------------------------------------------ATATTTATATAAATATATATA----------------------TATATATTTATA--T----------------TTATATATATATAT-------------------------------TT---------------------------ATAT--ATATATTTAT--------------ATTTATATATATTTA-----------TATT--------------------TTTAT---ATATTTAT--------ATATATATATTTATATATATATCTA------------------------TATATATATTTATTTATATTT-ATATT---TATTT--ATATTTAT--ATTT------ATTT----ATATSizeHit CountTotal NormTotal
No Reads
droTak1
ATCAGA-----TGTCT--A--------------------------------------------------------------------------------------------------------------------------------ATGTATATATA--C----------------------C--------------------------------------------TATATATGTAT----------------ATATATATACCTATATATGTGCATATA--T-----------ACCTATA-----------------------------------------------------------------TATTTATATATGTATATATGTAT---ATATAT---------------TA-------GGGC--G---G--GT--CGATTTGTATGGG-GCCGAA-----------ASizeHit CountTotal NormTotal
No Reads
droEug1
ATTT-ATAATGTATAT--ATTT---A--T----A--------TGTT----TATTTA--T------------------------------------------TTA----------TTTATATATT----------------------TTTATATTTATATAT----------------------TTATATAT-------------------------------TTATA---------------TATTTATATATTT------ATATATTTAT----------ATATT----TATATA-----------------------------------TTTAT---ATATTTATATAT----TTA----------------------T----------------------------------ATATT-TATATAT---------TTATATATTTAT--ATATTTATAT-----------ASizeHit CountTotal NormTotal
No Reads
dm3
AATAAA-----CGGTC--GCTT---G--C----G--------ATCT----TCA------AAATCAAATCGATAAC--TGTA------------ATTAT---TAA----------CTTATATATG------------------------------TATA--------TATGTATATAT------GTATATAT-------------------------------GTATAT-----------------------ATGT------ATATATGTAT----------ATATG----TATATA-----------TG---------------------------TATATATGTATATAT----GTA----------------------T----------------------------------ATATG-TATA---------------TATGTATAT--ATGTATATAT-----------GSizeHit CountTotal NormTotalGSM154618

Ovary		GSM154620

Ovary		GSM154621

Ovary		GSM154622

Ovary		GSM180328

Head		GSM180329

Mixed-body		GSM180330

Embryo		GSM180331

Embryo		GSM180332

Embryo		GSM180333

Embryo		GSM180334

Larvae		GSM180335

Disc		GSM180336

Pupae		GSM180337

S2		GSM239041

Head		GSM239050

Head		GSM239051

S2		GSM239052

S2		GSM246084

Head		GSM266765

S2		GSM280082

Ovary		GSM280083

Ovary		GSM280084

Ovary		GSM280085

Testis		GSM280086

Ovary		GSM280087

S2-NP		GSM280088

S2-NP		GSM312995

Head		GSM313160

Head		GSM313161

Head		GSM313162

Head		GSM313163

Head		GSM313164

Head		GSM313165

Head		GSM343287

Embryo		GSM379050

Ovary		GSM379051

Ovary		GSM379052

Ovary		GSM379053

Ovary		GSM379054

Ovary		GSM379055

Ovary		GSM379056

Ovary		GSM379057

Ovary		GSM379058

Ovary		GSM379059

Ovary		GSM379060

Ovary		GSM379061

Ovary		GSM379062

Ovary		GSM379063

Ovary		GSM379064

Ovary		GSM379065

Ovary		GSM379066

Ovary		GSM379067

Ovary		GSM424739

S2		GSM424740

S2		GSM424741

S2		GSM467729

Female-body		GSM467730

Female-body		GSM467731

Female-body		M002

CS		M003

Male-body		M004

Male-body		M005

ML-DmD32		M006

ML-DmD32		M029

OSC		M030

OSC		M031

OSC		M032

S2-R+		M033

S2-R+		M034

S2-R+		M035

S2-R+		M036

S2-R+		M037

S2-R+		M038

S2-R+		M039

S2-R+		M048

S2-R+		OSS2

OSS		OSS6

OSS		OSS7

OSS		OSS8

OSS		S1

Head		S10

Embryo		S11

Embryo		S12

Embryo		S13

Embryo		S14

Embryo		S15

S2-GMR		S16

Kc		S17

Larvae		S18

Larvae		S19

Pupae		S2

Head		S20

Pupae		S21

Disc		S22

Head		S23

Female-body		S24

Male-body		S25

Larvae		S26

Larvae		S27

Pupae		S28

Pupae		S29

Head		S3

Male-body		S30

S2-GMR		S31

S2		S32

S2		S33

Kc		S34

Kc		S35

Kc		S4

Female-body		S5

Disc		S6

Embryo		S7

Embryo		S8

S2		S9

Embryo		SRR001337

Head		SRR001338

Head		SRR001339

Head		SRR001340

Head		SRR001341

Head		SRR001342

Head		SRR001343

Head		SRR001344

Head		SRR001345

Head		SRR001346

Head		SRR001347

Head		SRR001348

Head		SRR001349

Head		SRR001664

Head		SRR010951

Ovary		SRR010952

Ovary		SRR010953

Ovary		SRR010954

Ovary		SRR010955

Ovary		SRR010956

Ovary		SRR010957

Ovary		SRR010958

Ovary		SRR010959

Ovary		SRR010960

Ovary		SRR014268

Embryo		SRR014269

Embryo		SRR014270

Embryo		SRR014271

Embryo		SRR014272

Embryo		SRR014273

Ovary		SRR014274

Ovary		SRR014275

Ovary		SRR014276

Ovary		SRR014277

Ovary		SRR014278

Ovary		SRR014279

Ovary		SRR014280

Ovary		SRR014281

Ovary		SRR014282

Ovary		SRR023197

S2		SRR023399

S2		SRR023400

S2		SRR023402

S2		SRR023407

S2		SRR029028

S2		SRR029029

S2		SRR029030

S2		SRR029031

S2		SRR029032

S2		SRR029033

S2		SRR029608

Head		SRR029633

Head		SRR030145

gb3		SRR031692

Head		SRR031693

Head		SRR031694

Head		SRR031696

Head		SRR031697

Head		SRR031698

Head		SRR031699

Head		SRR031700

Head		SRR031701

Head		SRR031702

Head		SRR031703

Head		SRR031704

Head		SRR032092

S2		SRR032093

S2		SRR032094

S2		SRR032095

S2-NP		SRR032096

S2-NP		SRR032152

Head		SRR060643

Testis		SRR060644

Ovary		SRR060645

Testis		SRR060646

Ovary		SRR060647

Ovary		SRR060648

Ovary		SRR060649

Ovary		SRR060650

Testis		SRR060651

Ovary		SRR060652

Testis		SRR060653

Ovary		SRR065151

Ovary		SRR065152

Ovary		SRR065153

Ovary		SRR065154

Ovary		SRR065155

Ovary		SRR065800

Ovary		SRR065801

Ovary		SRR065802

Ovary		SRR065803

Ovary		SRR065804

Ovary		SRR065805

Ovary		SRR065806

Ovary		SRR065807

Ovary		SRR097865

S2-NP		SRR097866

S2-NP		SRR097867

S2-NP		SRR298536

Ovary		SRR298537

Ovary		SRR298711

Ovary		SRR298712

Ovary		SRR317110

Ovary		SRR317111

Ovary		SRR317112

Ovary		SRR317113

Ovary		SRR317114

Ovary		SRR317115

Ovary		SRR317116

Ovary		SRR317117

Ovary		SRR341115

S2		SRR341116

S2		SRR341117

S2		SRR341118

S2		SRR351332

Mixed-body		SRR351333

Mixed-body		T004

OSC		T005

CME-L1		V001

Embryo		V002

Embryo		V003

S2		V006

Female-body		V007

Head		V008

S2		V009

CME-L1		V010

ML-DmD20-C5		V011

Sg4		V012

Male-body		V013

Head		V014

DTT		V015

DreRFHV		V018

Kc167		V019

GM2		V020

S2-R+		V021

ML-DmD21		V022

ML-DmD32		V023

Head		V024

Kc167		V025

S2-R+		V026

1182-2H		V027

ML-DmD21		V028

CME-W1-Cl.8+		V029

ML-DmD9		V030

ML-DmD8		V031

GM2		V032

S1		V033

CME-W1-Cl.8+		V034

ML-DmD16-C3		V035

ML-DmD32		V036

ML-DmD20-C5		V037

S2		V038

S2		V063

Ovary		V0632

Ovary		V064

Ovary		V0642

Ovary		V065

Ovary		V0652

Ovary		V066

Ovary		V0662

Ovary		V067

S2-NP		V073

mbn2		V074

S3		V075

ML-DmBG1-C1		V076

ML-DmBG3-C2		V077

Head		V078

Head		V079

Head		V080

Head		V081

Embryo		V082

Embryo		V083

Male-body		V084

Female-body		V085

CME-W2		V086

Female-body		V088

Ovary		V0882

Ovary		V089

Ovary		V0892

Ovary		V090

Male-body		V091

fGS/OSS		V092

Male-body		V093

Male-body		V094

S2-R+		V095

S2-R+		V096

Ovary		V097

Ovary		V098

Ovary		V125

ML-DmD9		V126

CME-L1		V127

G2		V128

S3		V129

ML-DmBG1-C1		V130

ML-DmBG3-C2		V131

ML-DmD16-C3		V132

ML-DmD32		V133

Sg4		V134

ML-DmD8		V135

CME-W2		V136

Male-body		V137

Head		V138

Male-body		V139

Female-body		V140

Female-body		V141

Female-body		V142

Female-body		V144

OSC		V145

S2		V146

S1		V147

1182-2H		V148

mbn2		GSM1528798

follicle cells
.....................................................................GATAAC--TGTA------------ATTAT---TAA----------CTTATATA...............................................................................................................................................................................................................................................................................................................................................................2683.13250000000000000000000000000000000000000000000000000000000010200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000201106300000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...............................................................CAAATCGATAAC--TGTA------------ATTAT---TA..................................................................................................................................................................................................................................................................................................................................................................................23202.35470000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000004700000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
....................................................A------AAATCAAATCGATAAC--TGTA------------AT..........................................................................................................................................................................................................................................................................................................................................................................................23201.90380000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000380000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...............................................................CAAATCGATAAC--TGTA------------ATT.........................................................................................................................................................................................................................................................................................................................................................................................19201.55310000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000310000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
....................................................A------AAATCAAATCGATAAC--TGTA------------ATT.........................................................................................................................................................................................................................................................................................................................................................................................24201.45290000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000280000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
.ATAAA-----CGGTC--GCTT---G--C----G--------ATC............................................................................................................................................................................................................................................................................................................................................................................................................................................20201.10220000000000000000000000000000000000000000404000000014000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
....................................................A------AAATCAAATCGATAAC--TGTA------------ATTA........................................................................................................................................................................................................................................................................................................................................................................................25201.10220000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000211000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
.............................................T----TCA------AAATCAAATCGATAAC--TGTA------------AT..........................................................................................................................................................................................................................................................................................................................................................................................26200.95190000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001170000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000
.............................................T----TCA------AAATCAAATCGATAAC--TGTA------------ATTA........................................................................................................................................................................................................................................................................................................................................................................................28200.60120000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000120000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
..............................................................TCAAATCGATAAC--TGTA------------ATTA........................................................................................................................................................................................................................................................................................................................................................................................21200.50100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...AAA-----CGGTC--GCTT---G--C----G--------ATCT----TC.....................................................................................................................................................................................................................................................................................................................................................................................................................................21200.50100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
..........................................ATCT----TCA------AAATCAAATCGA..................................................................................................................................................................................................................................................................................................................................................................................................................19200.50100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
.............................................T----TCA------AAATCAAATCGATAAC--TGTA------------ATT.........................................................................................................................................................................................................................................................................................................................................................................................27200.408000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000060002000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
.....................................................................GATAAC--TGTA------------ATTAT---TAA----------CTTATA.................................................................................................................................................................................................................................................................................................................................................................24160.386000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000500100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
AATAAA-----CGGTC--GCTT---G--C----G--------AT.............................................................................................................................................................................................................................................................................................................................................................................................................................................20200.306000000000000000000000000000000000000000000000000003010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000200000
...............................................................CAAATCGATAAC--TGTA------------ATTAT---TAA----------CTTA...................................................................................................................................................................................................................................................................................................................................................................28190.265000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000020210000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...........................................................AAATCAAATCGATAAC--TGTA------------AT..........................................................................................................................................................................................................................................................................................................................................................................................22200.255000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...............................................................CAAATCGATAAC--TGTA------------ATTAT---TAA----------CTT....................................................................................................................................................................................................................................................................................................................................................................27200.255000000000000000000000000000000000000000000000000000000000030000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
..................GCTT---G--C----G--------ATCT----TCA------AAAT..........................................................................................................................................................................................................................................................................................................................................................................................................................18200.255000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000200100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000
..............................................................TCAAATCGATAAC--TGTA------------AT..........................................................................................................................................................................................................................................................................................................................................................................................19200.255000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000500000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
..................GCTT---G--C----G--------ATCT----TCA------AAATCAAATCGA..................................................................................................................................................................................................................................................................................................................................................................................................................26200.204000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000020000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...........................................TCT----TCA------AAATCAAATCGA..................................................................................................................................................................................................................................................................................................................................................................................................................18200.204000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000004000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...........................................TCT----TCA------AAATCAAATCGATAAC--TGTA------------AT..........................................................................................................................................................................................................................................................................................................................................................................................28200.204000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...................................................................TCGATAAC--TGTA------------ATTAT---TAA----------CTTATA.................................................................................................................................................................................................................................................................................................................................................................26160.193000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
..................................................................ATCGATAAC--TGTA------------ATTAT---TAA----------CTTATA.................................................................................................................................................................................................................................................................................................................................................................27160.193000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010110000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
.......................................................................TAAC--TGTA------------ATTAT---TAA----------CTTATA.................................................................................................................................................................................................................................................................................................................................................................22160.193000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...................................................................TCGATAAC--TGTA------------ATTAT---TAA----------CTTA...................................................................................................................................................................................................................................................................................................................................................................24190.163000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000300000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
................................................................AAATCGATAAC--TGTA------------ATTAT---TAA----------CTTA...................................................................................................................................................................................................................................................................................................................................................................27190.163000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000201000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
AATAAA-----CGGTC--GCTT---G--C----G--------ATC............................................................................................................................................................................................................................................................................................................................................................................................................................................21200.153000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
..............TC--GCTT---G--C----G--------ATCT----TCA------AAATCAAATC....................................................................................................................................................................................................................................................................................................................................................................................................................26200.153000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000300000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
............................................CT----TCA------AAATCAAATCGATAAC--............................................................................................................................................................................................................................................................................................................................................................................................................21200.153000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010002000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
....................TT---G--C----G--------ATCT----TCA------AAATCAAATC....................................................................................................................................................................................................................................................................................................................................................................................................................22200.153000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000300000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...........................................TCT----TCA------AAATCAAATCGATAAC--TGTA------------A...........................................................................................................................................................................................................................................................................................................................................................................................27200.153000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
..............................................................TCAAATCGATAAC--TGTA------------ATTAT---TAA----------CT.....................................................................................................................................................................................................................................................................................................................................................................27200.153000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000030000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...............................................................CAAATCGATAAC--TGTA------------ATTAT---TAA----------T......................................................................................................................................................................................................................................................................................................................................................................25200.153000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000300000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...............................................................CAAATCGATAAC--TGTA------------AT..........................................................................................................................................................................................................................................................................................................................................................................................18200.153000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000
..................GCTT---G--C----G--------ATCT----TCA------AAATCAAAT.....................................................................................................................................................................................................................................................................................................................................................................................................................23200.153000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000300000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
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...............................................................CAAATCGATAAC--TGTA------------ATTAT---....................................................................................................................................................................................................................................................................................................................................................................................21200.102000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
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droSim2
AACA-A-----TATTT--GAAA---ATATCATTG--------AACA----CATGTG--G--------------------------------------------ACCTTTC------CACACA------------T--------------------------------------------------ATATAT-------------------------------ATA-------TA----------------TATAT------ATATATATAT----------ATATA-----------TATATATATAT-------------------------------ATATATATATAT----ATA----------------------T----------------------------------ATACTGAAGA---------------CATATATAT--ATATATATAT-----------ASizeHit CountTotal NormTotalM023

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
GTA-TG-----TACAT--ACTT---A--T----A--------TGTA----TATACT--T--------------------------------------------A----------TATGTATAT------------------------------------------------------------------ACTTATATGTATATACTTATATGTATATACTTA------------------------CATGTA-------------------------------------------------------TATACTTATATGTATATACTTATATGTAT---ATACTTAC----------------------------ATGTA------------------------TAT--------ACTTA---TATGT---ATATAATTATATGTATAT--AATTACTCGA-----------GSizeHit CountTotal NormTotalM054

Female-body		V113

Male-body		V114

Embryo		V115

Head
No Reads
droYak3
GTAT-G-----TATAT--ATAT---A--T----A--------TGTA----TATATA--T--------------------------------------------G----------TATATATAT------------------------------------------------------------------GTATATATATGTATATATATGTATATATATGTA--------------------------------------------------------------------TATATA-----------TGTATATATATGTATATATATGTATATAT---ATGT----------------------------ATATATATG------------------------TATATATATGTATATATATGT-ATATA---TATGT--ATATATAT--GTAT------ATAT----ATGTSizeHit CountTotal NormTotalM026

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
TGAATG-----TACAT--ATAT---G--GAATCTAAT----ATATA----TGTATA--T--------------------------------------------T----------AATATATA------------TAT----------------------------------------------ATATATA------------------------------------------TA----------------TATATATAT--ATATAT--------------ATATA-----------TATATATATATA-------------------------------TATATATATATATATATATATATATGTATATATATATGTA------------------------TGTATATGAGTGTATATGTTGAATATG---AATTG--CTGTGTAT--GATTCAAATG-----------GSizeHit CountTotal NormTotalM055

Female-body		M057

Embryo		V060

Head		V040

Embryo		V107

Male-body		V108

Head		GSM1528801

follicle cells
..........................................................................................................................................................................................................................................................................................................................................................................TATGTATATATATATGTA------------------------TG...................................................................20180.0611000000

Generated: 10/20/2015 at 07:37 PM