ID:

dsi_31052

 Coordinate:

2r:512224-512373 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-4.0 -4.0 -3.9

Flybase annnotation

exon [2r_511414_512223_-]; CDS [2r_511414_512223_-]; intron [2r_512224_512876_-]

Repeatable elements

NameClassFamilyStrand
DNAREP1_DMRCHelitron-

Sense Strand Reads

--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
AAAGTATATATATTCTCAATCGGGATCAAGAAATGTTTCCAAATTTTGCCACGCCCACTCACCCCCAAAAACTGCCACGCCTACTGTTTTGACCAATTTTGATTTTTTTCATATTATTATATTTTTTCCCAATATTTTCCGATATTCAAAAAAAAAAAAAAAATTCTAGACTATATTATTTTCTATTCAATTTATTACAGGTAAGACTTAAAGAAAAGCCAAAGGTAGAACTAGCAGAAGCAATAGCCGA
**************************************************...................................((((.((....((((..(((((((.(((((...(((((.......))))).....)))))..)))))))..))))....)).)))).............................************************************************** 		Read size # Mismatch Hit Count Total Norm Total SRR902009
testis
 SRR553485
Chicharo_3 day-old ovaries
 SRR553486
Makindu_3 day-old ovaries
 SRR902008
ovaries
 M024
male body		 M053
female body
 SRR553487
NRT_0-2 hours eggs
 SRR553488
RT_0-2 hours eggs
 SRR618934
dsim w501 ovaries
........................................................................................................................................................................................................................AGCCAAAGGTAGAACTAGCAGAAGCAA....... 27 0 1 5.00 5 4 0 0 1 0 0 0 0 0
...........................................................................................................................................................................................................................CAAAGGTAGAACTAGCAGAAGCAAT...... 25 0 1 5.00 5 1 2 0 2 0 0 0 0 0
.........................................................................................................................................................................................................TAAGACTTAAAGAAAAGCCAAAGGT........................ 25 0 1 3.00 3 0 2 1 0 0 0 0 0 0
..............................................................................................................................................................................................................................AGGTAGAACTAGCAGAAGCAATAGCCGA 28 0 1 3.00 3 3 0 0 0 0 0 0 0 0
..............................................................................................................................................................................................................................AGGTAGAACTAGCAGAAGCAATAGC... 25 0 1 2.00 2 2 0 0 0 0 0 0 0 0
...............................................................................................................................................................................................................TTAAAGAAAAGCCAAAGGTAGAAC................... 24 0 1 2.00 2 0 0 1 0 0 0 1 0 0
.........................................................................................................................................................................................................................GCCAAAGGTAGAACTAGCAGAAGCAAT...... 27 0 1 2.00 2 2 0 0 0 0 0 0 0 0
................................................................................................................................................................................................................TAAAGAAAAGCCAAAGGTAGAACTAGC............... 27 0 1 2.00 2 0 2 0 0 0 0 0 0 0
........................................................................................................................................................................................................................AGCCAAAGGCAGAACTAGCAGAAGCAA....... 27 1 1 1.00 1 1 0 0 0 0 0 0 0 0
........................................................................................................................................................................................................................AGCCAAAGGTAGAACTAGCAGAAGCAAT...... 28 0 1 1.00 1 1 0 0 0 0 0 0 0 0
.......................................................................................................................................................................................................................AAGCCAAAGGTAGAACTAGCAGAAGCAA....... 28 0 1 1.00 1 1 0 0 0 0 0 0 0 0
........................................................................................................................................................................................................................AGCCAAAGGTAGAACTAGCAGAAGC......... 25 0 1 1.00 1 0 0 0 0 1 0 0 0 0
............................................................................................................................................................................................................................AAAGGGAGAACTAGCAGAAGCAAT...... 24 1 1 1.00 1 0 1 0 0 0 0 0 0 0
.........................................................................................................................................................................................................................GCCAAAGGTAGAACTAGCAGAAGCAA....... 26 0 1 1.00 1 0 0 0 1 0 0 0 0 0
......................................................................................................................................TCTTCAGTTATTCAAAAAAAAAAAAAAAA....................................................................................... 29 3 1 1.00 1 0 1 0 0 0 0 0 0 0
........................................................................TGCCACGCCTACTGTTTTGACCAATTT....................................................................................................................................................... 27 0 1 1.00 1 0 0 1 0 0 0 0 0 0
..................................................................................................................................................................................................TAGCAAGTAAGACTTAAAGAAAAGC............................... 25 3 1 1.00 1 0 1 0 0 0 0 0 0 0
.........................................................................................................................................................................................................TAAGACTTAAAGAAAAGCCAAAGGTAGAAC................... 30 0 1 1.00 1 0 1 0 0 0 0 0 0 0
............................................................................................................................................................................................................................AAAGGTAGAACTAGCAGAAGCAA....... 23 0 1 1.00 1 0 0 0 1 0 0 0 0 0
..........................................................................................................................................................................................................................CCAAAGGTAGAACTAGCAGAAGCAATA..... 27 0 1 1.00 1 1 0 0 0 0 0 0 0 0
............................................................................................................................................................................................................................AAAGGTAGAACTAGCAGAAGCAATA..... 25 0 1 1.00 1 0 0 0 0 0 0 1 0 0
.....ATATATATTCTCAATCGGGATCAAGC........................................................................................................................................................................................................................... 26 1 1 1.00 1 0 0 0 0 0 0 0 0 1
...........................................................................................................................................................................................................................CAAAGGTAGAACTAGCAGAAGCAATAGC... 28 0 1 1.00 1 0 0 1 0 0 0 0 0 0
..................................................................................................................................................................................................TCAGAGGTAAGACTTAAAGAAAAGCAA............................. 27 3 1 1.00 1 0 0 1 0 0 0 0 0 0
.............................................................................................................................................................................................................................AAGGTAGAACTAGCAGAAGCAATAGCCGA 29 0 1 1.00 1 1 0 0 0 0 0 0 0 0
.............................................................................................................................................................................................................................AAGGTAGAACTAGCAGAAGCAATAGCC.. 27 0 1 1.00 1 0 0 0 0 1 0 0 0 0
..............................................................................................................................................................................................................................AGGTAGAACTAGCAGAAGCAATA..... 23 0 1 1.00 1 1 0 0 0 0 0 0 0 0
..............................................................................................................................................TGTTCAAAAGAAAAAAAAAAATTGTA.................................................................................. 26 3 1 1.00 1 0 1 0 0 0 0 0 0 0
................................................................................................................................................................................................................TAAAGAAAAGCCAAAGGTAGAAC................... 23 0 1 1.00 1 0 0 0 0 1 0 0 0 0
.........................................................................................................................................................................................................TAAGACTTAAAGAAAAGCCAAAGGTAGAA.................... 29 0 1 1.00 1 0 0 1 0 0 0 0 0 0
..........................................................................................................................................................................................................AAGACTTAAAGAAAAGCCAAAGGTA....................... 25 0 1 1.00 1 0 0 0 0 0 1 0 0 0
.............................................................................................................................................................................................................ACTTAAAGAAAAGCCAAAGGTAGAACT.................. 27 0 1 1.00 1 0 1 0 0 0 0 0 0 0
........................................................................................................................................................................................................................AGCCAAAGGTAGAACTAGCAGAAGCAATA..... 29 0 1 1.00 1 1 0 0 0 0 0 0 0 0
...............................................................................................................................................................................................TTATCAGAGGTAAGACTTAAAGAAAAGC............................... 28 2 1 1.00 1 0 0 1 0 0 0 0 0 0
..........................................................................................................................................................................................................................CCAAAGGTAGAACTAGCAGAAGCAAT...... 26 0 1 1.00 1 0 0 0 1 0 0 0 0 0
..................................................................................................................................................................................................................................AGAACTAGCAGAAGCAATAGCC.. 22 0 1 1.00 1 0 0 0 0 0 1 0 0 0
......................................................................................................................................................................................................................AAAGCCAAAGGTAGAACTAGCAGA............ 24 0 1 1.00 1 0 0 0 1 0 0 0 0 0
......................................................................................................................................TTTTCCGTTATTTAAAAAAAAAAAAAA......................................................................................... 27 2 1 1.00 1 0 0 0 0 0 0 0 1 0
.................................................................................TACTGTTTTGACCAATTTTGATTTTT............................................................................................................................................... 26 0 1 1.00 1 0 0 1 0 0 0 0 0 0
.......ATATATTCACAGTCGGGAT................................................................................................................................................................................................................................ 19 2 5 0.20 1 1 0 0 0 0 0 0 0 0
........................................................................................................................................................AAAAAAAAAAGTTCTAGA................................................................................ 18 1 6 0.17 1 1 0 0 0 0 0 0 0 0
.........................................................................................................................................TCCGGTCTTTAAAAAAAAAAAAAA......................................................................................... 24 3 6 0.17 1 0 1 0 0 0 0 0 0 0
........TATATTCACAGTCGGGACCA.............................................................................................................................................................................................................................. 20 3 7 0.14 1 1 0 0 0 0 0 0 0 0
.......................................................................................................................................TTCGCGATATTCAAAAAAAA............................................................................................... 20 2 8 0.13 1 0 0 0 0 0 0 0 1 0
.......ATATATTCACAGTCGGGA................................................................................................................................................................................................................................. 18 2 9 0.11 1 0 0 1 0 0 0 0 0 0
.........................................................................................................................................TCCGATAGTCAATTAAAAAAAA........................................................................................... 22 3 10 0.10 1 0 0 0 0 0 0 0 1 0
.....................................................................................................................................................AAAAAAAAAAAAAATTCTAAA................................................................................ 21 1 11 0.09 1 0 0 0 1 0 0 0 0 0
................................................................................................................................................................................................................................GTAGATCTAGCAGTATCAA....... 19 3 13 0.08 1 0 1 0 0 0 0 0 0 0
..........................................................................................................................................CACATATTCAAAAAAAAAAAAAA......................................................................................... 23 2 17 0.06 1 1 0 0 0 0 0 0 0 0
.........................................................................................................................................TCCGGTAGTCAAAAAAAA............................................................................................... 18 2 17 0.06 1 0 0 0 0 0 0 0 1 0
........TATATTCACAGTCGGGA................................................................................................................................................................................................................................. 17 2 17 0.06 1 0 0 0 0 0 0 0 1 0
..................ATCGGGAACAAGAACTG....................................................................................................................................................................................................................... 17 2 17 0.06 1 0 0 1 0 0 0 0 0 0

Anti-sense strand reads

TTTCATATATATAAGAGTTAGCCCTAGTTCTTTACAAAGGTTTAAAACGGTGCGGGTGAGTGGGGGTTTTTGACGGTGCGGATGACAAAACTGGTTAAAACTAAAAAAAGTATAATAATATAAAAAAGGGTTATAAAAGGCTATAAGTTTTTTTTTTTTTTTTAAGATCTGATATAATAAAAGATAAGTTAAATAATGTCCATTCTGAATTTCTTTTCGGTTTCCATCTTGATCGTCTTCGTTATCGGCT
**************************************************...................................((((.((....((((..(((((((.(((((...(((((.......))))).....)))))..)))))))..))))....)).)))).............................************************************************** 		Read size # Mismatch Hit Count Total Norm Total SRR553487
NRT_0-2 hours eggs
 M053
female body
 SRR553488
RT_0-2 hours eggs
 SRR553485
Chicharo_3 day-old ovaries
 SRR553486
Makindu_3 day-old ovaries
 M025
embryo
 SRR902009
testis
 GSM343915
embryo
 M024
male body		 SRR618934
dsim w501 ovaries
...................................................................................................................................................................................................................................CTTGAACGTCTTAGTTATCGGAT 23 3 1 5.00 5 5 0 0 0 0 0 0 0 0 0
......................................................................................................................................................................................................ACCATTCCGAATTTCTTT.................................. 18 2 11 3.55 39 0 31 0 1 0 5 0 1 1 0
...................................................................................................................................................................................................................................CTTGAACGTCTTAGTTATCGGA. 22 3 1 1.00 1 1 0 0 0 0 0 0 0 0 0
....................................................................................................................................................................................................................................TTGAACGTCTTAGTTATCGGAT 22 3 1 1.00 1 1 0 0 0 0 0 0 0 0 0
.......................................................................................................................................................................................................CCATTCCGAATTTCTT................................... 16 1 1 1.00 1 1 0 0 0 0 0 0 0 0 0
...................................................................................................................................................................................................................................CTTGACCGTCTTAGTTATCGGAT 23 3 1 1.00 1 1 0 0 0 0 0 0 0 0 0
..............................................................................................................................................ATAAGTCTTTTTTTTTCTTCTAAGAT.................................................................................. 26 3 1 1.00 1 0 0 1 0 0 0 0 0 0 0
....................................................................................................................................................................................................................................TTGAACGTCTTAGTTATCGGA. 21 3 2 1.00 2 2 0 0 0 0 0 0 0 0 0
..............................................................................................................................AGGGTTATAAAAGGCTATAAGTTTTTT................................................................................................. 27 0 1 1.00 1 0 0 0 1 0 0 0 0 0 0
...........................................................................................TGGTTAAAATTAAAAAAAGTATAAT...................................................................................................................................... 25 1 1 1.00 1 0 0 0 0 1 0 0 0 0 0
..................................................................................................................................................................................AAAAGATAAGTTAAATAATGTCCATT.............................................. 26 0 1 1.00 1 0 0 1 0 0 0 0 0 0 0
...............................................................................................................................GGGTAATAATAGGCTAGAAGT...................................................................................................... 21 3 3 0.33 1 0 0 0 0 0 1 0 0 0 0
..........................................................................................................................................GGCTAAAAGTTTTTTGTTTTTT.......................................................................................... 22 2 3 0.33 1 1 0 0 0 0 0 0 0 0 0
.......................................................................................................................................AAAGGCTAAAACTTTTTTGTTTTT........................................................................................... 24 3 3 0.33 1 1 0 0 0 0 0 0 0 0 0
..............................................................................................................................................................TTGTTAAGATGTGATAGAATA....................................................................... 21 3 3 0.33 1 0 0 0 1 0 0 0 0 0 0
.................TTGGCCCTAGGTCTTTAGAA..................................................................................................................................................................................................................... 20 3 4 0.25 1 0 0 1 0 0 0 0 0 0 0
................................................................................................................................GGTAATAATAGGCTAGAAGT...................................................................................................... 20 3 12 0.25 3 0 0 0 2 0 1 0 0 0 0
........................................TTTAAACCGGTGCGGGCAAGT............................................................................................................................................................................................. 21 3 4 0.25 1 0 0 0 0 0 0 1 0 0 0
.......................................................................................................................................................................................................CCATTCTGAATTTCTTTAAAG.............................. 21 3 4 0.25 1 0 1 0 0 0 0 0 0 0 0
............................................AAACGGTGTGGGTGTGCGGGGGT....................................................................................................................................................................................... 23 3 5 0.20 1 1 0 0 0 0 0 0 0 0 0
......................................................................................................................................AAAAGGCTATAAATTATTTTTGT............................................................................................. 23 3 6 0.17 1 0 0 0 0 1 0 0 0 0 0
......................................................................................................................................................................................................CCCATTCCGAATTTCTTT.................................. 18 2 7 0.14 1 0 1 0 0 0 0 0 0 0 0
........................................................................................................................................................................................................................TCGGTTTCCATATTG................... 15 1 9 0.11 1 0 0 0 0 1 0 0 0 0 0
................................................................GGTTTGTGACGATGCGCATG...................................................................................................................................................................... 20 3 20 0.05 1 0 0 0 0 0 0 0 1 0 0
.................................................................................................................................................................TTAAAATCTGCTATAATAAT..................................................................... 20 3 20 0.05 1 0 0 0 0 0 0 1 0 0 0
..............................................ACGGTGCGGGTGAGT............................................................................................................................................................................................. 15 0 20 0.05 1 0 0 0 0 0 0 0 0 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droSim2 2r:512174-512423 - dsi_31052 AAAGTATATATATTCT---------CAATCGGGATCAAGAAATGTTTCCAAATTTTGCCACGCCCACTCACCCCCAA---A----AACTGCCACGCCTAC-TG------------------------T--------------------------------------------------------------------TTTGA----------------CCAATTTT--------------------GATTTTTTTCATATTATTATATTTTTTCCCAATATTTT--------------------------CCGATATTCAAAAAAA-----------------------------------------------------------------------------------------------------------------AAAAAAAAA--------------------------------------------------------------------TTCTAGACTATATTATTTT---------------------------------------CTATTCAATTTATTACAGGTAAG------------ACTTAAAGA---AAAGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAATAGCCGA------------------------------------------------------------
droSec2 scaffold_203:11069-11315 - AAAGTATATATATTCT---------CAATCGGGATCAAGAAATGTTTCCAAATTTTGCCACGCCCACTCTACCCCCAA--A----AACTGCC-CGCCTAC-TG------------------------T--------------------------------------------------------------------TTTGA----------------CCAATTTT--------------------GATTTTTTTCATATTATTATATTTTTTCCCAATATTTT--------------------------CCGATATTCAAAA--------------------------------------------------------------------------------------------------------------------AAAAAAAAA--------------------------------------------------------------------TACTCGACTATATTATTTT---------------------------------------CTATTCAATTTATTATAGGTAAG------------ACTTAAAGA---AAAGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAATAGCCGA------------------------------------------------------------
dm3 chr2R:125179-125403 - AAAATTGAAATATTCC---------TAATCGGGATCAGGAAATGTTTCCAAATGTTGCCACGTCCAAAAATGCA----------------------------------------------------------------------------------------------------------------------------------------------------------ATTTTTTTTGGTTTCTTGATTTTTTTCATTTTATTTTCTTTTTTCCCAATATTTA--------------------------CTAATATA----A--------------------------------------------------------------------------------------------------------------------AAAAAAACC--------------------------------------------------------------------TACTTGACTATAGTATTTT---------------------------------------CTATTCAATTTATTACAGGTAAG------------ACTTAAAGA---AAAGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAATAGCCGA------------------------------------------------------------
droEre2 scaffold_4929:22285082-22285332 - AATGTGTTTTTATCCATTT-GTTATCTG------------------------TCTGGCCATTTTTAAGTGATCTGCCAAAAATAGT---TTGGCCCCGCC-AG------------------------C---------------------------------------------------------TCAAAATCAAA------------------------------------------------------------------------------------------------------------------CGAAACGCCCAAGAGATTTGAAAAT---------------------------GTATTAA--TTATTATTATTAATGTATCTAAGTAACGGGTATCTGAT------------------------------AGTAGAGC--------------------------------------------------------------------AACTCGACTATAACGTTCT---------------------------------------CTATTGAATTTATTACAGGTGAG------------ACTTAAAGA---AAAGCCAAG---GGTAGAACTCGC---------------------------------AGATGCAATAGCCGA------------------------------------------------------------
droYak3 v2_chr2L_random_028:498044-498305 + AAAAATGTTT--------------------------------------------TAACTACGCCTACGAACTGTAAA---A----ATCTGTGACTTCCAC-AG------------------------CTTTAAAAATT---GT------------------------------------------------------------------------------TTTC-----------------------TCTTTTTATGTT-TTATTTTTATTCCTGATTTTTA--------------------------TCGATATTTCAAAAAAATATGGAAATGCCGCTGCACTTCCACTATAT-----------------------------------GAGTTACATGTATCTGAT------------------------------AGTAAAGA--------------------------------------------------------------------AACTGGACTATAGTGTTCT---------------------------------------CAATTGAATTTATTACAGGTGAG------------ACTAAAAGA---AAAGCCAAG---AGTAGAACTAGC---------------------------------AGAATCAATAGCCGA------------------------------------------------------------
droEug1 scf7180000409867:5031-5182 + AAATTATATATATTCT---------TGATCAGGATCAATAGCGAAGTCGA--TTGAGCCATGTCCGTCTGTCTGTCT---C----GACTGTGGCGTCCAT-AA------------------------TATTATAGT---------------------------------------------------------------------------------TTATGTTTTCGTTTGACCTTGTATAACTTTTTTCT--------------------GTTAACATCTA--------------------------TCGATTTTTGAAA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBia1 scf7180000302494:21692-21941 - AAAGTATATATATTCT---------TGATCAGCGTCACAAGACGAGTCGA--TCTAGCCATGTCCGTCTGTCCGTCCG--------T------------C-TG------------------------T--------------------------------------------------------------------TTTGAC----------GCAAACTTGTCTC------------------------TCA-------------------GTTTTAAAGCTATCGGTATAAAACTTTCCCAAAAGT------------CG---------GATCGGATGATATAGTCGTAAAATTTAAATAAAATTTAA----------------------------------------TTT-----------------------------------------------------------------GAAATTCAGAACTA-------------------------ATTAAACAATGTTATTTT---------------------------------------CAAGCTAATA------AGGTTAT------------ATGTTAAAA---AGCACAAAA---GATATAATT---------------------------------------------------------------------------------------------------------------
droTak1 scf7180000415259:47401-47623 - AAAGTATATATATTCT---------TGATCAGCATCACTAGACGAGTCGA--TCTAGCCATGTCCGTCTGTCCGTCCG-------------------------------------------------T--------------------------------------------------------------------TTCTAC----------GCAAACTAGTTTT--------------------TATTTAGCACAAATAATAATATTTTATTTTAATTAGTA--------------------------CCCGTGGGCTGTT--------------------------------------------------------------------------------------------------------------------TA----AAATATTTATTAACGCCAGATTGTAA-------------------------------------------------AATCTTTAAC--ATT---------------------------------------TTATTTATTTTAATATTATTAAG-------------------------TGACTAAA---GGTACCACTAAT---------------------------------A--------------------------------------------------------------------------
droEle1 scf7180000490399:83784-83990 - AAAGTATATATATTCT---------TGATCAGCATCACTAGGAGAGTCGA--TCTAGCCACGTCTGTCCAAAA---------------------------------------------------CAAATTTAAAAAAA---ATTTTATTATTC-------------------TGTTTTTCTTATT-----------TTCTTTTT-------------------------------------------------------------------------AATTCT--------------------------TCGACATATAGTAATG-----------------------------------------------------------------------------------------------------------------G---TTAAA--------------------------------------------------------------------TATTT---------------------------------------------------------------------------------------------------------------------------CAGAATTACGGTTTAAATTTCATCAAACTCGGAC-------------GACTATAACATAAAGCACCA---GAAACAAT-----------------------A-----AA
droRho1 scf7180000773209:9645-9883 - AAAGTATATATATTCT---------TGATCAGCATCACCAGGAGAGTCGA--TCTAGCCATGTCCGTTTGACTGTCCGTCCGTCCG-------------T------------------------------------------------------------------------------------------------------CGGT----------------------------------------------------------------------------------TTGAAACTTTCGCAAAACTTTTCTTTCTATTGC---------GACTATATCATAAAGAAAAAAAATTTTTAAAAATTATAACTTTGTTGTTCTTAATTTTTTTTGCTCTTTGG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAT------TTGGTAAT------------ATTAAAATA---TCAATTCAA---AT--------------------------------------CGGAC-------------AACAAAATCATATAGCTTC-------------------------------------------
droFic1 scf7180000453254:16373-16602 - AAAGTATATATATTCT---------TGATCAGCATCACGAGCAGAGTCGG--AATACGTCTGTCCGTCTGTCTGTCTGTCCGTCTG-------------------------------------------------------------------------------------------------------------------TCTGTTTCTATGTAAACTAGTCTT--------------------GATGATTTTTTAAATATCAAGTTTTTTA---ACAACCC--------------------------TT-ATATT---------------------------------------------------------------------------------------------------------------------GAGAAAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGTTTCATAAAAATCGGAA-------------AACTATTTCTTATAGCTGCCATAGGAAAGATCGAAAAATCTATATAGAAATAATGGAAATAA
droKik1 scf7180000302469:2001464-2001666 - AAACCATATATATTCT---------TAATCAGCATCAAAAACCGATTCGA--TCTAGACATGTTTGGGGGAAA---------------------------------------------------AAAATTTT--------------------TAATTTTTTTTCCCGATATT-------------TTATTGTTAAA------------------------------------------------------------------------------------------------------------------ATTGTCATAAAAAAATTA-----------------------------------------------------------------------------------------------------------------TAAAAA-----------------TTTTTGATTTTTTAAAATTCTAAATTT-------------------------AGTAAGCAGATTT--------------------------------------------------------------GTTAA------------ACT-----------------A---GAAAAAACTAGC-------------------------------ACAGAAACGTTTTCCGA------------------------------------------------------------
droAna3 scaffold_13137:719467-719597 + AAAGTATATATATTCT---------TGATCAGGATCAGGACTT---TCCA-------------------------------------------------------------------------------------------------------------------------------------------------------------------CACACTTATTTT---------------TTATTTATTTTTA--------------------TAAATATATT--------------------------TCTATTTTTAGCC---------AAAAT---------------------------------------------------------------------------------------------ATCTTATGTACA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAATTTC-------------ATAAGGAATGGCCGACTATAT------------------------------------------------------
droBip1 scf7180000393172:29816-30006 - AAAGTATATATATTCTGATCAT---TGATCAGGATCACCTCCTGAGTTGA--TATGAGCATGTCCGTCTGCCTGTTTCT-----------------------GTA------------------------------AAAGTATT-------AGA-------------------AGTTTAT-----------------TTTGA----------------CAAGTTTG--------------------TATTTTTTTG-TAAT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATGTG-----T----ATGTACATGTTTTCCCCAGAT--------------------------C--------------------------------------------GAGTATCCATAGTATAATAAGGATACATTA---TATTCCATACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp5 2:14859312-14859471 + AAAGTATATATATTCT---------GGATCAGCATCAAAAGCCGAGTCAA--TACAACCATGTCTATCGGCCGGATGGGCAGTCCT-------------TTCT------------------------T--------------------------------------------------------------------TT--------------------TAATTTA--------------------GGTCTTTGTTA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACT--------------------------C--------------------------------------------AAACATTGCTA-TATAATCCGGCAATATTATTTTATTTCACACAATAAAATACAAT----------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer2 scaffold_7:3330863-3331024 - AAAGTATATATATTCT---------TGATCAGCATCAATAGCCGAGTAGA--TTGAGCCATGTCTGTCGATCCGTCCG--------T---------CC----GGA------------------------------AAAGGTTT-------TTC-------------------AGTTTTTTCTATT-----------TTCTGT----------G--------------------------------C-------------------ACTTTTAGTCATTATTTA--------------------------TCGATCATTCACC----------------------------------------------------------------------------------------------------AATAAATATCT--------------------------------------------------------------------------------------GAATCTTATCGTTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil2 scf2_1100000004943:1096476-1096756 - AAAATATTCATAGTCT---------TGATCAGGATCAACAGCCTTGTCGA--TCTAGCCATGTCCGTTCGTATGAACACGCAGGTT-------------------------------------------------------------------------------------------------------------------TCGGACACTATGAAAGCTACAGTC----------------ACCAAATTTTATACATA-GATTATATTTTTGCCACG-----------------------------------CCCCTTTTC---------GACGCCGTCA---------------------------------------------------------------------TTT----------------------GAAAAAAAAAA-------------------------------------------TCG-------------------------ATTATCTTCCGTAATTTTTAACCCTGTG-----------------------------CAATTAAATTTGGCACACATAAATTTGATATTAATATTTAGCAA---AACACCGAATTGGATCCAAATCGG---------------------------------ATTAACAATAGCCAA------------------------------------------------------------
droVir3 scaffold_12855:9073287-9073462 - AAAGTATATATATTCT---------TGATCAGCACCAATAGCCGAGTCGA--TCTAGCCATATCCGTCTGTTTGTAG---A----TGTAGATGCTCCT---AG------------------------T--------------------------------------------------------------------TCCCGC----------GCAGATCGAGTTTTTTTCCGATAATCGATAACTTACTCCG--------------------T-----------------------------------TT------------------------------------------------------------------------------------------------------ATAAAATACAAATAGATATCG-----------------------------------------------------------------------------------------ATATCCTGTTTT---------------------------------------TTGGGCAATTT------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6500:29281331-29281559 + CAAGTATATATATTCT---------TGATCAGGACGACGAGCTGAGTCGA--TATAGCC-CGTCTGTCCGTCCGTAT---G----AACGTCCATGTAGAC-TC--GTATATATCATACTCAATACAAGTTTA----------------------------------------------------------------------------------------------TAATATTTTTTGGATAACTCATTCCA--------------------T-----------------------------------ATCTTTTTATTGA---------GGA--------------------------------------------------------------------------------TAATCG-------------------------------------------------------------------------------------------------ATAAATTGATATTGTTTT---------------------------------------TCAGCCTA-------------------------------ATTTGAATACTTTTGGA---CCTAGAGACTTC---------------------------------AGATTTACTGTTTAA------------------------------------------------------------
droGri2 scaffold_15245:12068162-12068335 + AGAGAGGATATATTCT---------TGATCAGGATCAACAGCCGAGTCGA--TACC----------------------------------------------------------------------------------------------------------------------------------------------CGGC----------GCAGACCAATTTTGCTTTATTTTATTGATAACTGTTTTCG--------------------T-----------------------------------TT------------------------------------------------------------------------------------------------------CTCGAATATCGATAGATAACA-------ATAA--A---------------------------------------------TACCACAATTGTGAATAAAAAGTAAAATATTTTAGAAATTTC---------------------------------------TTATTATATTTATT---------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droSim2
AAAGTATATATATTCT---------CAATCGGGATCAAGAAATGTTTCCAAATTTTGCCACGCCCACTCACCCCCAA---A----AACTGCCACGCCTAC-TG------------------------T--------------------------------------------------------------------TTTGA----------------CCAATTTT--------------------GATTTTTTTCATATTATTATATTTTTTCCCAATATTTT--------------------------CCGATATTCAAAAAAA-----------------------------------------------------------------------------------------------------------------AAAAAAAAA--------------------------------------------------------------------TTCTAGACTATATTATTTT---------------------------------------CTATTCAATTTATTACAGGTAAG------------ACTTAAAGA---AAAGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAATAGCCGA------------------------------------------------------------SizeHit 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
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAA...................................................................2715.00500000000000014000
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAAA---GGTAGAACTAGC---------------------------------AGAAGCAAT..................................................................2515.00500000020000021000
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAAG------------ACTTAAAGA---AAAGCCAAA---GGT.....................................................................................................................2513.00300000021000000000
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................A---GGTAGAACTAGC---------------------------------AGAAGCAATAGCCGA------------------------------------------------------------2813.00300000000000003000
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................A---GGTAGAACTAGC---------------------------------AGAAGCAATAGC...............................................................2512.00200000000000002000
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTAAAGA---AAAGCCAAA---GGTAGAAC................................................................................................................2412.00200000001100000000
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAAT..................................................................2712.00200000000000002000
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAAAGA---AAAGCCAAA---GGTAGAACTAGC---------------------------------...........................................................................2712.00200000020000000000
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAAT..................................................................2811.00100000000000001000
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAA...................................................................2811.00100000000000001000
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCCAAA---GGTAGAACTAGC---------------------------------AGAAGC.....................................................................2511.00101000000000000000
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAA...................................................................2611.00100000000000010000
........................................................................................TGCCACGCCTAC-TG------------------------T--------------------------------------------------------------------TTTGA----------------CCAATTT................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................2711.00100000001000000000
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAAG------------ACTTAAAGA---AAAGCCAAA---GGTAGAAC................................................................................................................3011.00100000010000000000
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAA---GGTAGAACTAGC---------------------------------AGAAGCAA...................................................................2311.00100000000000010000
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCAAA---GGTAGAACTAGC---------------------------------AGAAGCAATA.................................................................2711.00100000000000001000
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAA---GGTAGAACTAGC---------------------------------AGAAGCAATA.................................................................2511.00100000000100000000
.....ATATATATTCT---------CAATCGGGATCAAGC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................2611.00100000000001000000
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAAA---GGTAGAACTAGC---------------------------------AGAAGCAATAGC...............................................................2811.00100000001000000000
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AA---GGTAGAACTAGC---------------------------------AGAAGCAATAGCCGA------------------------------------------------------------2911.00100000000000001000
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AA---GGTAGAACTAGC---------------------------------AGAAGCAATAGCC..............................................................2711.00101000000000000000
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................A---GGTAGAACTAGC---------------------------------AGAAGCAATA.................................................................2311.00100000000000001000
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAAAGA---AAAGCCAAA---GGTAGAAC................................................................................................................2311.00101000000000000000
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAAG------------ACTTAAAGA---AAAGCCAAA---GGTAGAA.................................................................................................................2911.00100000001000000000
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAG------------ACTTAAAGA---AAAGCCAAA---GGTA....................................................................................................................2511.00100010000000000000
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTAAAGA---AAAGCCAAA---GGTAGAACT...............................................................................................................2711.00100000010000000000
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAATA.................................................................2911.00100000000000001000
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCAAA---GGTAGAACTAGC---------------------------------AGAAGCAAT..................................................................2611.00100000000000010000
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTAGC---------------------------------AGAAGCAATAGCC..............................................................2211.00100010000000000000
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAGCCAAA---GGTAGAACTAGC---------------------------------AGA........................................................................2411.00100000000000010000
.................................................................................................TAC-TG------------------------T--------------------------------------------------------------------TTTGA----------------CCAATTTT--------------------GATTTTT....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................2611.00100000001000000000
droSec2
AAAGTATATATATTCT---------CAATCGGGATCAAGAAATGTTTCCAAATTTTGCCACGCCCACTCTACCCCCAA--A----AACTGCC-CGCCTAC-TG------------------------T--------------------------------------------------------------------TTTGA----------------CCAATTTT--------------------GATTTTTTTCATATTATTATATTTTTTCCCAATATTTT--------------------------CCGATATTCAAAA--------------------------------------------------------------------------------------------------------------------AAAAAAAAA--------------------------------------------------------------------TACTCGACTATATTATTTT---------------------------------------CTATTCAATTTATTATAGGTAAG------------ACTTAAAGA---AAAGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAATAGCCGA------------------------------------------------------------SizeHit CountTotal NormTotalM054
Female-body		V113
Male-body		V114
Embryo		V115
Head
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAG------------ACTTAAAGA---AAAGCCAAA---GGT.....................................................................................................................2411.0010100
dm3
AAAATTGAAATATTCC---------TAATCGGGATCAGGAAATGTTTCCAAATGTTGCCACGTCCAAAAATGCA----------------------------------------------------------------------------------------------------------------------------------------------------------ATTTTTTTTGGTTTCTTGATTTTTTTCATTTTATTTTCTTTTTTCCCAATATTTA--------------------------CTAATATA----A--------------------------------------------------------------------------------------------------------------------AAAAAAACC--------------------------------------------------------------------TACTTGACTATAGTATTTT---------------------------------------CTATTCAATTTATTACAGGTAAG------------ACTTAAAGA---AAAGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCAATAGCCGA------------------------------------------------------------SizeHit 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		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
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............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAGCCAAA---GGTAGAACTAGC---------------------------------AGAAGCA....................................................................2811.0010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAGCCAAA---GGTAGAACTAGC---------------------------------AGA........................................................................2411.0010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................G------------ACTTAAAGA---AAAGCCAAA---GGTAGAA.................................................................................................................2611.0010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
droEre2
AATGTGTTTTTATCCATTT-GTTATCTG------------------------TCTGGCCATTTTTAAGTGATCTGCCAAAAATAGT---TTGGCCCCGCC-AG------------------------C---------------------------------------------------------TCAAAATCAAA------------------------------------------------------------------------------------------------------------------CGAAACGCCCAAGAGATTTGAAAAT---------------------------GTATTAA--TTATTATTATTAATGTATCTAAGTAACGGGTATCTGAT------------------------------AGTAGAGC--------------------------------------------------------------------AACTCGACTATAACGTTCT---------------------------------------CTATTGAATTTATTACAGGTGAG------------ACTTAAAGA---AAAGCCAAG---GGTAGAACTCGC---------------------------------AGATGCAATAGCCGA------------------------------------------------------------SizeHit CountTotal NormTotalM055
Female-body		M057
Embryo		V060
Head		V040
Embryo		V107
Male-body		V108
Head		GSM1528801
follicle cells
.......................................................................................................................................................................................................................................................................................................................................................................................................................AT------------------------------AGTAGAGC--------------------------------------------------------------------AACTCGACT....................................................................................................................................................................................................................................1911.0010000010
........................................................................................................................................................................................................................................................................................................................................................................................ATTATTAATGTATCTAAGTAACGGGT..............................................................................................................................................................................................................................................................................................................................................................2611.0010000010
................................................................................................................................................................................................................................................................................................................................................................................................................GTATCTGAT------------------------------AGTAGAGC--------------------------------------------------------------------AACTCGACT....................................................................................................................................................................................................................................2611.0010001000
droYak3
AAAAATGTTT--------------------------------------------TAACTACGCCTACGAACTGTAAA---A----ATCTGTGACTTCCAC-AG------------------------CTTTAAAAATT---GT------------------------------------------------------------------------------TTTC-----------------------TCTTTTTATGTT-TTATTTTTATTCCTGATTTTTA--------------------------TCGATATTTCAAAAAAATATGGAAATGCCGCTGCACTTCCACTATAT-----------------------------------GAGTTACATGTATCTGAT------------------------------AGTAAAGA--------------------------------------------------------------------AACTGGACTATAGTGTTCT---------------------------------------CAATTGAATTTATTACAGGTGAG------------ACTAAAAGA---AAAGCCAAG---AGTAGAACTAGC---------------------------------AGAATCAATAGCCGA------------------------------------------------------------SizeHit 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
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAATTGAATTTATTACAGGTGAG------------ACT.............................................................................................................................................2611.00100000010000
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GA---AAAGCCAAG---AGTAGAACTAGC---------------------------------AGA........................................................................2611.00101000000000
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................G------------ACTAAAAGA---AAAGCCAAG---AGTAGAACTA..............................................................................................................2911.00100000010000
droEug1
AAATTATATATATTCT---------TGATCAGGATCAATAGCGAAGTCGA--TTGAGCCATGTCCGTCTGTCTGTCT---C----GACTGTGGCGTCCAT-AA------------------------TATTATAGT---------------------------------------------------------------------------------TTATGTTTTCGTTTGACCTTGTATAACTTTTTTCT--------------------GTTAACATCTA--------------------------TCGATTTTTGAAA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droBia1
AAAGTATATATATTCT---------TGATCAGCGTCACAAGACGAGTCGA--TCTAGCCATGTCCGTCTGTCCGTCCG--------T------------C-TG------------------------T--------------------------------------------------------------------TTTGAC----------GCAAACTTGTCTC------------------------TCA-------------------GTTTTAAAGCTATCGGTATAAAACTTTCCCAAAAGT------------CG---------GATCGGATGATATAGTCGTAAAATTTAAATAAAATTTAA----------------------------------------TTT-----------------------------------------------------------------GAAATTCAGAACTA-------------------------ATTAAACAATGTTATTTT---------------------------------------CAAGCTAATA------AGGTTAT------------ATGTTAAAA---AGCACAAAA---GATATAATT---------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droTak1
AAAGTATATATATTCT---------TGATCAGCATCACTAGACGAGTCGA--TCTAGCCATGTCCGTCTGTCCGTCCG-------------------------------------------------T--------------------------------------------------------------------TTCTAC----------GCAAACTAGTTTT--------------------TATTTAGCACAAATAATAATATTTTATTTTAATTAGTA--------------------------CCCGTGGGCTGTT--------------------------------------------------------------------------------------------------------------------TA----AAATATTTATTAACGCCAGATTGTAA-------------------------------------------------AATCTTTAAC--ATT---------------------------------------TTATTTATTTTAATATTATTAAG-------------------------TGACTAAA---GGTACCACTAAT---------------------------------A--------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
AAAGTATATATATTCT---------TGATCAGCATCACTAGGAGAGTCGA--TCTAGCCACGTCTGTCCAAAA---------------------------------------------------CAAATTTAAAAAAA---ATTTTATTATTC-------------------TGTTTTTCTTATT-----------TTCTTTTT-------------------------------------------------------------------------AATTCT--------------------------TCGACATATAGTAATG-----------------------------------------------------------------------------------------------------------------G---TTAAA--------------------------------------------------------------------TATTT---------------------------------------------------------------------------------------------------------------------------CAGAATTACGGTTTAAATTTCATCAAACTCGGAC-------------GACTATAACATAAAGCACCA---GAAACAAT-----------------------A-----AASizeHit CountTotal NormTotal
No Reads
droRho1
AAAGTATATATATTCT---------TGATCAGCATCACCAGGAGAGTCGA--TCTAGCCATGTCCGTTTGACTGTCCGTCCGTCCG-------------T------------------------------------------------------------------------------------------------------CGGT----------------------------------------------------------------------------------TTGAAACTTTCGCAAAACTTTTCTTTCTATTGC---------GACTATATCATAAAGAAAAAAAATTTTTAAAAATTATAACTTTGTTGTTCTTAATTTTTTTTGCTCTTTGG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAT------TTGGTAAT------------ATTAAAATA---TCAATTCAA---AT--------------------------------------CGGAC-------------AACAAAATCATATAGCTTC-------------------------------------------SizeHit CountTotal NormTotal
No Reads
droFic1
AAAGTATATATATTCT---------TGATCAGCATCACGAGCAGAGTCGG--AATACGTCTGTCCGTCTGTCTGTCTGTCCGTCTG-------------------------------------------------------------------------------------------------------------------TCTGTTTCTATGTAAACTAGTCTT--------------------GATGATTTTTTAAATATCAAGTTTTTTA---ACAACCC--------------------------TT-ATATT---------------------------------------------------------------------------------------------------------------------GAGAAAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGTTTCATAAAAATCGGAA-------------AACTATTTCTTATAGCTGCCATAGGAAAGATCGAAAAATCTATATAGAAATAATGGAAATAASizeHit CountTotal NormTotal
No Reads
droKik1
AAACCATATATATTCT---------TAATCAGCATCAAAAACCGATTCGA--TCTAGACATGTTTGGGGGAAA---------------------------------------------------AAAATTTT--------------------TAATTTTTTTTCCCGATATT-------------TTATTGTTAAA------------------------------------------------------------------------------------------------------------------ATTGTCATAAAAAAATTA-----------------------------------------------------------------------------------------------------------------TAAAAA-----------------TTTTTGATTTTTTAAAATTCTAAATTT-------------------------AGTAAGCAGATTT--------------------------------------------------------------GTTAA------------ACT-----------------A---GAAAAAACTAGC-------------------------------ACAGAAACGTTTTCCGA------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droAna3
AAAGTATATATATTCT---------TGATCAGGATCAGGACTT---TCCA-------------------------------------------------------------------------------------------------------------------------------------------------------------------CACACTTATTTT---------------TTATTTATTTTTA--------------------TAAATATATT--------------------------TCTATTTTTAGCC---------AAAAT---------------------------------------------------------------------------------------------ATCTTATGTACA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAATTTC-------------ATAAGGAATGGCCGACTATAT------------------------------------------------------SizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
...........ATTCT---------TGATCAGGATCAGG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................1990.111000010
droBip1
AAAGTATATATATTCTGATCAT---TGATCAGGATCACCTCCTGAGTTGA--TATGAGCATGTCCGTCTGCCTGTTTCT-----------------------GTA------------------------------AAAGTATT-------AGA-------------------AGTTTAT-----------------TTTGA----------------CAAGTTTG--------------------TATTTTTTTG-TAAT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATGTG-----T----ATGTACATGTTTTCCCCAGAT--------------------------C--------------------------------------------GAGTATCCATAGTATAATAAGGATACATTA---TATTCCATACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
dp5
AAAGTATATATATTCT---------GGATCAGCATCAAAAGCCGAGTCAA--TACAACCATGTCTATCGGCCGGATGGGCAGTCCT-------------TTCT------------------------T--------------------------------------------------------------------TT--------------------TAATTTA--------------------GGTCTTTGTTA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACT--------------------------C--------------------------------------------AAACATTGCTA-TATAATCCGGCAATATTATTTTATTTCACACAATAAAATACAAT----------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit 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
...GTATATATATTCT---------GGATCAGC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................21100.1010000000010
droPer2
AAAGTATATATATTCT---------TGATCAGCATCAATAGCCGAGTAGA--TTGAGCCATGTCTGTCGATCCGTCCG--------T---------CC----GGA------------------------------AAAGGTTT-------TTC-------------------AGTTTTTTCTATT-----------TTCTGT----------G--------------------------------C-------------------ACTTTTAGTCATTATTTA--------------------------TCGATCATTCACC----------------------------------------------------------------------------------------------------AATAAATATCT--------------------------------------------------------------------------------------GAATCTTATCGTTTT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
...............T---------TGATCAGCATCAATAGCCGAGTA................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................24120.334040000
.............TCT---------TGATCAGCATCAATAGCCGAGTA................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................26110.273030000
droWil2
AAAATATTCATAGTCT---------TGATCAGGATCAACAGCCTTGTCGA--TCTAGCCATGTCCGTTCGTATGAACACGCAGGTT-------------------------------------------------------------------------------------------------------------------TCGGACACTATGAAAGCTACAGTC----------------ACCAAATTTTATACATA-GATTATATTTTTGCCACG-----------------------------------CCCCTTTTC---------GACGCCGTCA---------------------------------------------------------------------TTT----------------------GAAAAAAAAAA-------------------------------------------TCG-------------------------ATTATCTTCCGTAATTTTTAACCCTGTG-----------------------------CAATTAAATTTGGCACACATAAATTTGATATTAATATTTAGCAA---AACACCGAATTGGATCCAAATCGG---------------------------------ATTAACAATAGCCAA------------------------------------------------------------SizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
............................................................................................................................................................................................................................................................TACATA-GATTATATTTTTGCCACG-----------------------------------CCCCT...................................................................................................................................................................................................................................................................................................................................................................................................................................................2911.00101000
.............................................GTCGA--TCTAGCCATGTCCGTT............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................21200.05110000
droVir3
AAAGTATATATATTCT---------TGATCAGCACCAATAGCCGAGTCGA--TCTAGCCATATCCGTCTGTTTGTAG---A----TGTAGATGCTCCT---AG------------------------T--------------------------------------------------------------------TCCCGC----------GCAGATCGAGTTTTTTTCCGATAATCGATAACTTACTCCG--------------------T-----------------------------------TT------------------------------------------------------------------------------------------------------ATAAAATACAAATAGATATCG-----------------------------------------------------------------------------------------ATATCCTGTTTT---------------------------------------TTGGGCAATTT------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit 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
........TATATTCT---------TGATCAGCACCAATAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................24202.65530000400000000000000000000005000000400400000000000000000000000000
............TTCT---------TGATCAGCACCAATAGCCGAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................25200.60120000000000000000000000010110000000000000000000000000000000000000
.........ATATTCT---------TGATCAGCACCAATAGC......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................24200.5010000000000000000000000010900000000000000000000000000000000000000
.............TCT---------TGATCAGCACCAATAGCCGAGTC................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................26200.255000000000000000000000000000000000040000000000000000000000000010
.........ATATTCT---------TGATCAGCACCAATAGCC.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................25200.255002000000000000000000000000030000000000000000000000000000000000
......................................................................................................................................................................................................................................CGATAATCGATAACTTACTCCG--------------------T-----------------------------------TT------------------------------------------------------------------------------------------------------A...................................................................................................................................................................................................................................................................................................................................................26150.071000000000000000000000000000100000000000000000000000000000000000
........................................GCCGAGTCGA--TCTAGCCATATCC...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................23200.051000000000000000000001000000000000000000000000000000000000000000
............TTCT---------TGATCAGCACCAATAGCCGAGTCG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................28200.051000000000000000000000000001000000000000000000000000000000000000
.............TCT---------TGATCAGCACCAATAGCCG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................22200.051000000000000000000000000100000000000000000000000000000000000000
...............................................CGA--TCTAGCCATATCCGTC............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................19200.051001000000000000000000000000000000000000000000000000000000000000
...............T---------TGATCAGCACCAATAGCCGAGTCG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................25200.051000000000000000000001000000000000000000000000000000000000000000
...................................CAATAGCCGAGTCGA--TCTAGCCATA..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................25200.051001000000000000000000000000000000000000000000000000000000000000
...............T---------TGATCAGCACCAATAGCCGAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................22200.051000000000000000000000000000000000010000000000000000000000000000
.......................................................................................................................................................................................................................................GATAATCGATAACTTACTCCG--------------------T-----------------------------------............................................................................................................................................................................................................................................................................................................................................................................................................................................................22200.051001000000000000000000000000000000000000000000000000000000000000
....................................................................................................................................................................................................................................TCCGATAATCGATAACTTACTC......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................22200.051000000000000000000000000001000000000000000000000000000000000000
..................................................................................................................................................................................................................................TTTCCGATAATCGATAACTTA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................21200.051000000000000000000000000001000000000000000000000000000000000000
............................TCAGCACCAATAGCCGAGTCGA--TCT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................25200.051000000000000000000000000000000000000000000000000000000000000001
........TATATTCT---------TGATCAGCACCAATAGCCG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................27200.051000000000000000000000000000000000100000000000000000000000000000
droMoj3
CAAGTATATATATTCT---------TGATCAGGACGACGAGCTGAGTCGA--TATAGCC-CGTCTGTCCGTCCGTAT---G----AACGTCCATGTAGAC-TC--GTATATATCATACTCAATACAAGTTTA----------------------------------------------------------------------------------------------TAATATTTTTTGGATAACTCATTCCA--------------------T-----------------------------------ATCTTTTTATTGA---------GGA--------------------------------------------------------------------------------TAATCG-------------------------------------------------------------------------------------------------ATAAATTGATATTGTTTT---------------------------------------TCAGCCTA-------------------------------ATTTGAATACTTTTGGA---CCTAGAGACTTC---------------------------------AGATTTACTGTTTAA------------------------------------------------------------SizeHit CountTotal NormTotalM046
Female-body		V041
Embryo		V049
Head		V056
Head		M060
Embryo		V110
Male-body
........................................................................CGTAT---G----AACGTCCATGTAGAC-TC--GTA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................2611.001100000
.............................................GTCGA--TATAGCC-CGTCTGT.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................1950.201100000
................................................GA--TATAGCC-CGTCTGTCCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................1950.201001000
.............................CAGGACGACGAGCTGAGTCGA--............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................21200.153100002
...............T---------TGATCAGGACGACGAGCTGAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................22200.153300000
..........TATTCT---------TGATCAGGACGACGAGCTG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................25200.102200000
.........ATATTCT---------TGATCAGGACGACGAGCT.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................25200.051000010
...............T---------TGATCAGGACGACGAGCTGAGTCG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................25200.051100000
droGri2
AGAGAGGATATATTCT---------TGATCAGGATCAACAGCCGAGTCGA--TACC----------------------------------------------------------------------------------------------------------------------------------------------CGGC----------GCAGACCAATTTTGCTTTATTTTATTGATAACTGTTTTCG--------------------T-----------------------------------TT------------------------------------------------------------------------------------------------------CTCGAATATCGATAGATAACA-------ATAA--A---------------------------------------------TACCACAATTGTGAATAAAAAGTAAAATATTTTAGAAATTTC---------------------------------------TTATTATATTTATT---------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM041
Female-body		V109
Male-body
.....................................ACAGCCGAGTCGA--TACC----------------------------------------------------------------------------------------------------------------------------------------------CGGC----------GCA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................2411.00110

Generated: 05/19/2015 at 11:55 AM