dvi_9231

-----------------------------------------------###--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CGGCATCAGCAGCAACAACTACAACAAAAACAACAAGAGAGATAATCATGGTAAGTTTGCAGCTGACGTCGTCGCGCGCCTTTTTAGACTAACACCAAATGCGGCAATGGCAGCAACAACACCCACACAGACGCAGTCGCCGTTGGCGGCGCAGCCTCGCTTGAATTCAAAAACATCAAATTCGTTTTCAGTTAACGCGCTGATTTGTTGCCCAACGGTTTTTCGTTTTTAATTAAGCGCAGCATTATTTG ************************************************...........((((.((((((((((.((....................(((.((....)).)))..............(((...))))))).))))))))))))..(((((((.....(((((.........)))))...)))).)))..************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR060658 140_ovaries_total	SRR060666 160_males_carcasses_total	SRR060682 9x140_0-2h_embryos_total	M027 male body	SRR060668 160x9_males_carcasses_total
........................................................................................................................ACCCACACAGACGCAGTCGCC..............................................................................................................	21	0	1	2.00	2	2	0	0	0	0
................................................................................................................................................................................................AAACGCGCTGATTTGTTGCG.......................................	20	2	1	1.00	1	0	1	0	0	0
.........................................................................................................AATGGCCGCAAGAACACC................................................................................................................................	18	2	10	0.10	1	0	0	1	0	0
..................ATGCTACAAAAACAACAAGAGA...................................................................................................................................................................................................................	22	3	20	0.05	1	0	0	0	0	1
.............................................................GCAGACGTCGGCGCGAGCC...........................................................................................................................................................................	19	3	20	0.05	1	0	0	0	1	0
...............................................................................CTTTTTAGACGAAAATCAAAT.......................................................................................................................................................	21	3	20	0.05	1	0	0	1	0	0

GCCGTAGTCGTCGTTGTTGATGTTGTTTTTGTTGTTCTCTCTATTAGTACCATTCAAACGTCGACTGCAGCAGCGCGCGGAAAAATCTGATTGTGGTTTACGCCGTTACCGTCGTTGTTGTGGGTGTGTCTGCGTCAGCGGCAACCGCCGCGTCGGAGCGAACTTAAGTTTTTGTAGTTTAAGCAAAAGTCAATTGCGCGACTAAACAACGGGTTGCCAAAAAGCAAAAATTAATTCGCGTCGTAATAAAC ************************************************...........((((.((((((((((.((....................(((.((....)).)))..............(((...))))))).))))))))))))..(((((((.....(((((.........)))))...)))).)))..************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V053 head	SRR060682 9x140_0-2h_embryos_total	SRR060685 9xArg_0-2h_embryos_total	M028 head	SRR060658 140_ovaries_total	V116 male body	SRR060666 160_males_carcasses_total
...............................................................................................................TCGGTCTTGTGGGTGTGACTGC......................................................................................................................	22	3	2	0.50	1	1	0	0	0	0	0	0
...............................................................................................................................................................................................CTTTGCGCGACTAAACAACG........................................	20	2	3	0.33	1	0	1	0	0	0	0	0
..........................................................................................TTGTGGTTTCTGCCGTTACC.............................................................................................................................................	20	2	3	0.33	1	0	0	1	0	0	0	0
.................................GTTCTATCTGTTAGTACC........................................................................................................................................................................................................	18	2	4	0.25	1	0	0	0	1	0	0	0
.....................................................................................................................TTGTGGGTGTGTCGACGTCAG.................................................................................................................	21	2	5	0.20	1	0	0	0	0	1	0	0
..............................................................................................................................................AAGTGCCGCGCCGGAGCGA..........................................................................................	19	3	9	0.11	1	0	0	0	0	0	1	0
..............................................................................................................................................................................................ACTTTGCGCGACTAAACAACG........................................	21	3	10	0.10	1	0	0	0	0	0	0	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droVir3	scaffold_12928:7244509-7244759 +	dvi_9231	CGGCATCAGCAGCAACAACTACA-ACAAAAA------CAA---CAA-------------------------------------------------------------------GAGAGAT------------AATCATGGTAAGTTTGCAGCTGACGTCGT---------CGCGCGCCTTTTTAGACTAACACCAAATGCGGC------------------------------------------------------------------------------------------A---ATGGCAGCAACAAC------------------ACCCACACA------------------------------------------------GACGCAGTCGCCGTTGGCGGCGCAG------------------------------------------CCTCGCTTGAA-TTCAAAAACATC--------------------------AAATTCGTTTTCAGTTAACGCGCTGATTTG----TTGCCCAACGGTTTTTCGTTTTTAA----TTAAGCGCAGCATTATTTG
droMoj3	scaffold_6473:2828092-2828391 -		CAGCAGCAGCAGCAGCAGCAGCA-GCAGAAA------GAA---GAAAAAC-------------------------------------AGAA-----------AACAAAACAAA--GATAT------------AATCATGGTAAGTCCGCAGCTGACGTCGCCG-------CGCGCGCCTTTTTGGACTAGTACCAAATGCGGC---------------------------------------------------------------------------------AACAGCAACA---GCAACAGCAACAACAGTAAC------------ACCCACACA------------------------------------------------AACGCAGCTGCCGTTGGCGGCGCAG------------------------------------------CCTCGCTT----------------CGAGCGATTTTCAAAAACCAAACACAAAATCCGTTTTCAGTTAGCGCGCTGATTTC----TTGGCCAACGGTTTTTCGTCTCTAACACATCAAGTGCTCCATAATTTG
droGri2	scaffold_15081:3462080-3462412 -		GATATATAT-ACATA------TATATCTTCATACACATACTA-TAG-------------------------------------------------------------------A------------------AATAATGGTAAGTCCACAGCTGACGTTGTCGTTGTCGTCGCGCGCCTTTTTCGACCAACACCAAATGCGGC-ATTGGCAAAAGCAAGC------------------------------------------TT---AA--------CAACAACAACAACAACA---ATAACAATAATAGCAACAAC------------ACCCAC---ACAGTCTCAGCTCGC---------------AGTCGCAGTCAGAGCTCA-----GCTCGCCGTTGCCGTCTCTGCCGGCGTCGGCATTGCGATTAACACTTTGCACCACACAGC----------------------------------------------------AAATCAG--TTCAGTTAACGCGCTGATTTGGTTGGTGGCCAACGGTTATATATATATAA-ATATATAG------------TT
droWil2	scf2_1100000004909:8447919-8448022 +		CAACAACAACAACAACAACAACA-ACAACAA------CAA---CCA-------------------------------------------------------------------ATC----AGATAAATT-------------------------------------------------------------------------------------------------------------------------------------------------------CACCAATGGCACCT---G---CACC---TGGTACAACAATGCAC-----ACACACACA------------------------------------------------CACACAGACGCA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp5	4_group1:1870479-1870565 -		--GCAACAGCAACAAAAACTACA-GCAACAG------CAG---CAA-------------------------------------------------------------------CGAAAT-GT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGAAGCTGAC------------------AGATGAACA------------------------------------------------GGCAACATTGTTGCTGGGGCTGTGG------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------
droPer2	scaffold_10111:326-490 +		CAGCAACAGCAGCAGCAGCAACA-ACAAAGT------GAACAACCGCAA-CAAAGT---------------------------------------------------------------------ACCCCAG-----------------------------------------------------------------------CAGCAGCAGGGACAGGGGCATCGTCATCTTCTTCGATGGCTGCCAACATCATCTCGGAGATGCCAA--------CAGCAACAACAACGACA---ACAGCAGCGGCGGCGGCAAC------------GTCAGC----------------------------------------------------------------------------------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------
droAna3	scaffold_13088:486968-487085 +		CAGCAGCAACAACTGCAACAGCA-ACAACAG------CAA---CTG-------------------------------------------------------------------CAG----CAGCAACTCGAG-----------------------------------------------------------------------CAGCAGC--------------------------------------------------------------------------TAGAGCAACA---GGAGCAGCAACAACAGCAAC------------AG-----CA------------------------------------------------GCAGCAGCAGCAGCCGATGGTGCAG------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------
droBip1	scf7180000393900:40113-40175 +		CAGCAGCAGCAACAACAACAGCA-ACAACAG------CAA---CAG-------------------------------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGCAACAACAACAGCAAC------------TT------G---------------------------------------------------------------------GAGG------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------
droKik1	scf7180000302704:51449-51625 +		CAGCAGAAACAGCAACATCTACA-TTAAAGA------CAA---CGA-------------------------------------------------------------------CAGCAG-CAGCAACAACAG-----------------------------------------------------------------------CAGCAGCGATTACAAAT------------------------------------------AA---AT--------CTGCAACAACAGCGACA---GCGGCAGCGACGACAGCATC------------GACGAC--------------------------------------------------------------CGAGGACAAGGCAG------------------------------------------CTAAGTCTAAT-TA----------CAAACAATTT-------------------------------------------TT--------------------TTTTAAATAT-ATACACAG------------AT
droFic1	scf7180000454055:1830601-1830781 -		CAGCAACAGCAGCAACACCTACA-ACAGCAG------CAG---CAGCATC-------------------------------------ACTT-----------GCAACACCAGA--TGCAT------------ACGCATCATAAC---------------------------------------------------------------------------------------------------TTCCAGCAACAT----GAAACGCCAGCAACACTGTCGCAACAGCAGCATAT---G---CAGC---AGCAGCAACAGGCTACACAGCAGCAAC--------------ACAC---------------------------------GGCGCAGCAGCAACATGCGACACAG------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------
droEle1	scf7180000486503:862-1027 -		TA-CAACAAAAACTA------TA-ATTAAAATGCACTGGCCAATTACAA-TTAAGT-TTGGCC---AAC-----GGCGACGGCGACCAAGAGCAGCA-ACCAATAATA--------------------------------------------------------------------------------TG-------------------------AAAGA------------------------------------------AC---GT--------CAGCAGAAACATCAACA---GCGGCAGAGACGGCGGCAGC------------GAT---------------------------------------------------------------------------GGAG------------------------------------------CGACGCGTAGC-TATAAAAACA-------------------------------------------------------------------------------------------------------------T
droRho1	scf7180000765648:39783-39881 +		CAACATCAGCAGCAACAGCAACA-ACAGCAG------CAA---CAA-------------------------------------------------------------------CAGCAAC------------AG---------------------------------------------------------------------C---------------------------------------------------------------AG-----------CAGCAACAGCAACA---ACAGCAGCAGCAACAGCAACAAC---------ACCAGCAAC---------------------------------------------------------------------AACA------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------
droBia1	scf7180000302422:6754653-6754697 -		CAGCAACAGCAGCAACATCTACA-GCGGCAA------CAC---CAA-------------------------------------------------------------------CGGGAGC------------AA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droTak1	scf7180000413903:2539-2782 +		CATCGGCAGCAGCAGCAACTGCA-ACTAAAG------CAA---TAACAATCAATGG----GCCCCAAACGACATGGCGACGTCAACGAG--GCTGCACACCAGCAACACCAAA----------------------------------------------------------------------------------AATGCAGC---------------------------------------------------------------------------AGC---AACAGCAACAGCAGCTGCAGC---TGCAACAGCAA------------CAA-----------------TCGCACTTGCAACGCCTGAA--------------------GGCGGCCGGTTGCCTGGGGG------------------------------------------CGTGGCTG--CCATCAATGACGTC--------------------------GATGTGGCTGCCAACCGAC-------TTTC----TTGCCCAACTGCTT--------------------------------TT
droEug1	scf7180000409008:353591-353716 +		CAGAAGCAGCAGCAACAACAACG-ACAATAA------CAA---CATGACACATTGTGTTGTTCACATG----------------CCGCC--GCTGCAGGGCAACAAAACCAGA--TGAAG------------ACG--------------------------------------------------ACAAA-------------------------AAGGA------------------------------------------G-----------------------CAGCAGCA---GAGGCAGC------AACAA-----------------------------------------------------------------------------------------------------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------
droSim2	x:18649887-18649925 -		CAGCAGCAGCAGCAACAACCAAC-TCAAAAG------CAA---CAA-------------------------------------------------------------------GAG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droYak3	3L:17019318-17019379 +		CAGCATCAGCAACAGTAACAGCA-ACCAAAC------CAT---CAA-------------------------------------------------------------------CAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGGCAAC---------------------------------ATG----------------------------------------------------------------------------------------------------GCAACATGGCAAC-----------------------------------------------------------------------------------------------------------------------------------
droEre2	scaffold_4784:17805852-17805904 +		CAACAACTGCAGCAACAACAACA-GCAACAA------CAA---CAG-------------------------------------------------------------------CAG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAACAACCGCGGCA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droVir3

CGGCATCAGCAGCAACAACTACA-ACAAAAA------CAA---CAA-------------------------------------------------------------------GAGAGAT------------AATCATGGTAAGTTTGCAGCTGACGTCGT---------CGCGCGCCTTTTTAGACTAACACCAAATGCGGC------------------------------------------------------------------------------------------A---ATGGCAGCAACAAC------------------ACCCACACA------------------------------------------------GACGCAGTCGCCGTTGGCGGCGCAG------------------------------------------CCTCGCTTGAA-TTCAAAAACATC--------------------------AAATTCGTTTTCAGTTAACGCGCTGATTTG----TTGCCCAACGGTTTTTCGTTTTTAA----TTAAGCGCAGCATTATTTG	Size	Hit Count	Total Norm	Total	M027 Male-body	M028 Head	M047 Female-body	M061 Embryo	SRR060654 Ovary	SRR060655 Testis	SRR060656 Ovary	SRR060657 Testis	SRR060658 Ovary	SRR060659 Testis	SRR060660 Ovary	SRR060661 Embryo	SRR060662 Embryo	SRR060663 Embryo	SRR060664 Male-body	SRR060665 Female-body	SRR060666 Male-body	SRR060667 Female-body	SRR060668 Male-body	SRR060669 Female-body	SRR060670 Testis	SRR060671 Male-body	SRR060672 Female-body	SRR060673 Ovary	SRR060674 Ovary	SRR060675 Ovary	SRR060676 Ovary	SRR060677 Ovary	SRR060678 Testis	SRR060679 Testis	SRR060680 Testis	SRR060681 Testis	SRR060682 Embryo	SRR060683 Testis	SRR060684 Embryo	SRR060685 Embryo	SRR060686 Embryo	SRR060687 Embryo	SRR060688 Ovary	SRR060689 Testis	SRR1106712 embryo_0-2h	SRR1106713 embryo_0-2h	SRR1106714 embryo_2-4h	SRR1106715 embryo_4-6h	SRR1106716 embryo_4-6h	SRR1106717 embryo_6-8h	SRR1106718 embryo_6-8h	SRR1106719 embryo_8-10h	SRR1106720 embryo_8-10h	SRR1106721 embryo_10-12h	SRR1106722 embryo_10-12h	SRR1106723 embryo_12-14h	SRR1106724 embryo_12-14h	SRR1106725 embryo_14-16h	SRR1106726 embryo_14-16h	SRR1106727 larvae	SRR1106728 larvae	SRR1106729 mixed whole adult body	SRR1106730 embryo_16-30h	V047 Embryo	V053 Head	V116 Male-body	GSM1528803 follicle cells
.........................................................................................................................................................................................................................................................................................................................................ACCCACACA------------------------------------------------GACGCAGTCGCC...........................................................................................................................................................................................	21	1	2.00	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

CAGCAGCAGCAGCAGCAGCAGCA-GCAGAAA------GAA---GAAAAAC-------------------------------------AGAA-----------AACAAAACAAA--GATAT------------AATCATGGTAAGTCCGCAGCTGACGTCGCCG-------CGCGCGCCTTTTTGGACTAGTACCAAATGCGGC---------------------------------------------------------------------------------AACAGCAACA---GCAACAGCAACAACAGTAAC------------ACCCACACA------------------------------------------------AACGCAGCTGCCGTTGGCGGCGCAG------------------------------------------CCTCGCTT----------------CGAGCGATTTTCAAAAACCAAACACAAAATCCGTTTTCAGTTAGCGCGCTGATTTC----TTGGCCAACGGTTTTTCGTCTCTAACACATCAAGTGCTCCATAATTTG	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.................................................................................................................................................................................................................................................................................................CAACA---GCAACAGCAACAACAGT...............................................................................................................................................................................................................................................................................	22	10	1.10	11	1	0	0	0	10	0

droGri2

GATATATAT-ACATA------TATATCTTCATACACATACTA-TAG-------------------------------------------------------------------A------------------AATAATGGTAAGTCCACAGCTGACGTTGTCGTTGTCGTCGCGCGCCTTTTTCGACCAACACCAAATGCGGC-ATTGGCAAAAGCAAGC------------------------------------------TT---AA--------CAACAACAACAACAACA---ATAACAATAATAGCAACAAC------------ACCCAC---ACAGTCTCAGCTCGC---------------AGTCGCAGTCAGAGCTCA-----GCTCGCCGTTGCCGTCTCTGCCGGCGTCGGCATTGCGATTAACACTTTGCACCACACAGC----------------------------------------------------AAATCAG--TTCAGTTAACGCGCTGATTTGGTTGGTGGCCAACGGTTATATATATATAA-ATATATAG------------TT	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
............................................................................................................................................................................................................................................................................A--------CAACAACAACAACAACA---................................................................................................................................................................................................................................................................................................	18	20	0.05	1	1	0

droWil2

CAACAACAACAACAACAACAACA-ACAACAA------CAA---CCA-------------------------------------------------------------------ATC----AGATAAATT-------------------------------------------------------------------------------------------------------------------------------------------------------CACCAATGGCACCT---G---CACC---TGGTACAACAATGCAC-----ACACACACA------------------------------------------------CACACAGACGCA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
No Reads

dp5

--GCAACAGCAACAAAAACTACA-GCAACAG------CAG---CAA-------------------------------------------------------------------CGAAAT-GT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGAAGCTGAC------------------AGATGAACA------------------------------------------------GGCAACATTGTTGCTGGGGCTGTGG------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------

Size

Hit Count

Total Norm

Total

M022
Male-body

M040
Female-body

M059
Embryo

M062
Head

V043
Embryo

V051
Head

V112
Male-body

SRR902010
Ovary

SRR902011
Testis

SRR902012
CNS imaginal disc

No Reads

droPer2

CAGCAACAGCAGCAGCAGCAACA-ACAAAGT------GAACAACCGCAA-CAAAGT---------------------------------------------------------------------ACCCCAG-----------------------------------------------------------------------CAGCAGCAGGGACAGGGGCATCGTCATCTTCTTCGATGGCTGCCAACATCATCTCGGAGATGCCAA--------CAGCAACAACAACGACA---ACAGCAGCGGCGGCGGCAAC------------GTCAGC----------------------------------------------------------------------------------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
..............................................................................................................................................................................................................................................ATGGCTGCCAACATCATCTCG......................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0
.................................................................................................................................................................................................................CAGGGACAGGGGCATCGTCATC..................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0

droAna3

CAGCAGCAACAACTGCAACAGCA-ACAACAG------CAA---CTG-------------------------------------------------------------------CAG----CAGCAACTCGAG-----------------------------------------------------------------------CAGCAGC--------------------------------------------------------------------------TAGAGCAACA---GGAGCAGCAACAACAGCAAC------------AG-----CA------------------------------------------------GCAGCAGCAGCAGCCGATGGTGCAG------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
......................................AA---CTG-------------------------------------------------------------------CAG----CAGCAACTCGAG-----------------------------------------------------------------------CA............................................................................................................................................................................................................................................................................................................................................................................................	22	1	2.00	2	0	2	0	0	0	0
...................................................................................................................G----CAGCAACTCGAG-----------------------------------------------------------------------CAGCAGC--------------------------------------------------------------------------TAGAGCA......................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	0	1	0	0
.............................................................................................................................................................................................................GCAGC--------------------------------------------------------------------------TAGAGCAACA---GGAG............................................................................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
...........................ACAG------CAA---CTG-------------------------------------------------------------------CAG----CAGCAACTCGAG-----------------------------------------------------------------------C.............................................................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0
..............................G------CAA---CTG-------------------------------------------------------------------CAG----CAGCAACTCG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	1
........................ACAACAG------CAA---CTG-------------------------------------------------------------------CAG----CAGC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0
................................................................................................................................CGAG-----------------------------------------------------------------------CAGCAGC--------------------------------------------------------------------------TAGAGCAACA---GG..............................................................................................................................................................................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0
................................................................................................................................................................................................................................................................................................GCAACA---GGAGCAGCAACAACAGCAAC------------................................................................................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0
...................................................................................................................................G-----------------------------------------------------------------------CAGCAGC--------------------------------------------------------------------------TAGAGCAACA---GGA.............................................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
.......AACAACTGCAACAGCA-ACAACAG------C...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
..............................G------CAA---CTG-------------------------------------------------------------------CAG----CAGCAACTCGAG-----------------------------------------------------------------------..............................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0
.............................................................................................................................................................................................................GCAGC--------------------------------------------------------------------------TAGAGCAACA---GGAGC...........................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	1	0	0	0
...........ACTGCAACAGCA-ACAACAG------C...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	2	0.50	1	0	1	0	0	0	0
....................................................................................................................................................................................................................................................................................................................AACAGCAAC------------AG-----CA------------------------------------------------GCAGCAGCAGCA...........................................................................................................................................................................................	25	20	0.20	4	0	1	0	0	0	3
....AGCAACAACTGCAACAGCA-.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	8	0.13	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................AAC------------AG-----CA------------------------------------------------GCAGCAGCAGCAGC.........................................................................................................................................................................................	21	20	0.10	2	0	2	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................ACAGCAAC------------AG-----CA------------------------------------------------GCAGCAGCAGC............................................................................................................................................................................................	23	20	0.10	2	0	2	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................CAAC------------AG-----CA------------------------------------------------GCAGCAGCAGCA...........................................................................................................................................................................................	20	20	0.10	2	0	0	2	0	0	0
..............................................................................................................................................................................................................................................................................................................AGCAACAACAGCAAC------------AG-----CA------------------------------------------------GC.....................................................................................................................................................................................................	21	20	0.10	2	0	0	0	2	0	0
....................................................................................................................................................................................................................................................................................................................AACAGCAAC------------AG-----CA------------------------------------------------GCAGCAGCA..............................................................................................................................................................................................	22	20	0.10	2	0	1	1	0	0	0
.........................................................................................................................................................................................................................................................................................................................CAAC------------AG-----CA------------------------------------------------GCAGCAGCAGCAGC.........................................................................................................................................................................................	22	20	0.10	2	0	2	0	0	0	0
................................................................................................................................................................................................................................................................................................................CAACAACAGCAAC------------AG-----CA------------------------------------------------GCAGCAGC...............................................................................................................................................................................................	25	12	0.08	1	0	1	0	0	0	0
.................................................................................................................................................................................................................................................................................................................AACAACAGCAAC------------AG-----CA------------------------------------------------GCAGCAGC...............................................................................................................................................................................................	24	12	0.08	1	0	1	0	0	0	0
..............................................................................................................................................................................................................................................................................................................AGCAACAACAGCAAC------------AG-----CA------------------------------------------------GCAGC..................................................................................................................................................................................................	24	13	0.08	1	0	0	0	0	0	1
............................................................................................................................................................................................................................................................................................................GCAGCAACAACAGCAAC------------AG-----CA------------------------------------------------GCA....................................................................................................................................................................................................	24	14	0.07	1	0	1	0	0	0	0
......................................................................................................................................................................................................................................................................................................................CAGCAAC------------AG-----CA------------------------------------------------GCAGCAGCA..............................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1
...........................................................................................................................................................................................................................................................................................................AGCAGCAACAACAGCAAC------------AG-----C........................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................ACAGCAAC------------AG-----CA------------------------------------------------GCAGCAGC...............................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
............................................................................................................................................................................................................................................................................................................GCAGCAACAACAGCAAC------------AG-----C........................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
....................................................................................................................................................................................................................................................................................................................AACAGCAAC------------AG-----CA------------------------------------------------GCAGCAGCAGC............................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................................................................................................AGCAGCAACAACAGCAAC------------AG-----CA------------------------------------------------.......................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
..................................................................................................................................................................................................................................................................................................................ACAACAGCAAC------------AG-----CA------------------------------------------------GCAGC..................................................................................................................................................................................................	20	20	0.05	1	0	0	1	0	0	0
.................................................................................................................................................................................................................................................................................................................AACAACAGCAAC------------AG-----CA------------------------------------------------GC.....................................................................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0

droBip1

CAGCAGCAGCAACAACAACAGCA-ACAACAG------CAA---CAG-------------------------------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGCAACAACAACAGCAAC------------TT------G---------------------------------------------------------------------GAGG------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CAGCAGAAACAGCAACATCTACA-TTAAAGA------CAA---CGA-------------------------------------------------------------------CAGCAG-CAGCAACAACAG-----------------------------------------------------------------------CAGCAGCGATTACAAAT------------------------------------------AA---AT--------CTGCAACAACAGCGACA---GCGGCAGCGACGACAGCATC------------GACGAC--------------------------------------------------------------CGAGGACAAGGCAG------------------------------------------CTAAGTCTAAT-TA----------CAAACAATTT-------------------------------------------TT--------------------TTTTAAATAT-ATACACAG------------AT	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CAGCAACAGCAGCAACACCTACA-ACAGCAG------CAG---CAGCATC-------------------------------------ACTT-----------GCAACACCAGA--TGCAT------------ACGCATCATAAC---------------------------------------------------------------------------------------------------TTCCAGCAACAT----GAAACGCCAGCAACACTGTCGCAACAGCAGCATAT---G---CAGC---AGCAGCAACAGGCTACACAGCAGCAAC--------------ACAC---------------------------------GGCGCAGCAGCAACATGCGACACAG------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TA-CAACAAAAACTA------TA-ATTAAAATGCACTGGCCAATTACAA-TTAAGT-TTGGCC---AAC-----GGCGACGGCGACCAAGAGCAGCA-ACCAATAATA--------------------------------------------------------------------------------TG-------------------------AAAGA------------------------------------------AC---GT--------CAGCAGAAACATCAACA---GCGGCAGAGACGGCGGCAGC------------GAT---------------------------------------------------------------------------GGAG------------------------------------------CGACGCGTAGC-TATAAAAACA-------------------------------------------------------------------------------------------------------------T	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CAACATCAGCAGCAACAGCAACA-ACAGCAG------CAA---CAA-------------------------------------------------------------------CAGCAAC------------AG---------------------------------------------------------------------C---------------------------------------------------------------AG-----------CAGCAACAGCAACA---ACAGCAGCAGCAACAGCAACAAC---------ACCAGCAAC---------------------------------------------------------------------AACA------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

CAGCAACAGCAGCAACATCTACA-GCGGCAA------CAC---CAA-------------------------------------------------------------------CGGGAGC------------AA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CATCGGCAGCAGCAGCAACTGCA-ACTAAAG------CAA---TAACAATCAATGG----GCCCCAAACGACATGGCGACGTCAACGAG--GCTGCACACCAGCAACACCAAA----------------------------------------------------------------------------------AATGCAGC---------------------------------------------------------------------------AGC---AACAGCAACAGCAGCTGCAGC---TGCAACAGCAA------------CAA-----------------TCGCACTTGCAACGCCTGAA--------------------GGCGGCCGGTTGCCTGGGGG------------------------------------------CGTGGCTG--CCATCAATGACGTC--------------------------GATGTGGCTGCCAACCGAC-------TTTC----TTGCCCAACTGCTT--------------------------------TT	Size	Hit Count	Total Norm	Total
No Reads

droEug1

CAGAAGCAGCAGCAACAACAACG-ACAATAA------CAA---CATGACACATTGTGTTGTTCACATG----------------CCGCC--GCTGCAGGGCAACAAAACCAGA--TGAAG------------ACG--------------------------------------------------ACAAA-------------------------AAGGA------------------------------------------G-----------------------CAGCAGCA---GAGGCAGC------AACAA-----------------------------------------------------------------------------------------------------------------------------------------C-----------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droSim2

CAGCAGCAGCAGCAACAACCAAC-TCAAAAG------CAA---CAA-------------------------------------------------------------------GAG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Size

Hit Count

Total Norm

Total

M023
Head

M024
Male-body

M025
Embryo

M053
Female-body

O001
Testis

O002
Head

SRR553485
Ovary

SRR553486
Ovary

SRR553487
Ovary

SRR553488
Ovary

SRR618934
Ovary

V044
Embryo

SRR902008
Ovary

SRR902009
Testis

SRR1275487
Male larvae

SRR1275485
Male prepupae

SRR1275483
Male prepupae

No Reads

droYak3

CAGCATCAGCAACAGTAACAGCA-ACCAAAC------CAT---CAA-------------------------------------------------------------------CAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGGCAAC---------------------------------ATG----------------------------------------------------------------------------------------------------GCAACATGGCAAC-----------------------------------------------------------------------------------------------------------------------------------

Size

Hit Count

Total Norm

Total

M026
Head

M043
Female-body

M056
Embryo

V046
Embryo

V052
Head

V058
Head

V120
Male-body

SRR1275488
Male larvae

SRR1275486
Male prepupae

SRR1275484
Male prepupae

GSM1528802
follicle cells

No Reads

droEre2

CAACAACTGCAGCAACAACAACA-GCAACAA------CAA---CAG-------------------------------------------------------------------CAG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAACAACCGCGGCA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.............AACAACAACA-GCAACAA------CAA---CAG-------------------------------------------------------------------CA......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	5	0.20	1	1	0	0	0	0	0	0
.................ACAACA-GCAACAA------CAA---CAG-------------------------------------------------------------------CA......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	17	0.06	1	1	0	0	0	0	0	0

dvi_9231

scaffold_12928:7244559-7244709 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-30.8	-30.7	-30.7