dmo_1983

exon [dmoj_GLEANR_8016:1]; CDS [Dmoj\GI22833-cds]; exon [dmoj_GLEANR_8016:2]; CDS [Dmoj\GI22833-cds]; intron [Dmoj\GI22833-in]

Name	Class	Family	Strand
TART_DV	LINE	Jockey	-
(CTG)n	Simple_repeat	Simple_repeat	+

##################################################---------------------------------------------------################################################## TTGTCGCCGCGCATGCGTGATCAGTTGCAGCAACAACAACAGCAACAACACCAACAGCAGCAACAGCAGCAGCAGCAACAGCAGCAATTGCCTCCGCATAGCGACAACGAGGAGGATGAGCATGATGATGATTTCGAGCGCAAATCCGTGG ************************************************.........((....((((..((.((....)).))..))))....))....************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M060 embryo	M046 female body	V041 embryo
................................................CACCAACAGCAGCAACAGCAGC.................................................................................	22	0	16	2.38	38	29	8	1
.....................................................................CAGCAGCAACTGCAGCAATTGCC...........................................................	23	1	2	0.50	1	1	0	0
................................................CACCAACAGCAGCAACAGCAG..................................................................................	21	0	17	0.29	5	3	2	0
.........................................................................ATCAACAGCAGCCATTTCCTCC........................................................	22	3	5	0.20	1	0	1	0
.................................................ACCAACAGCAGCAACAGCAGC.................................................................................	21	0	20	0.15	3	2	1	0
................................................CACTAACAGCAGCAACAGCAGC.................................................................................	22	1	20	0.15	3	3	0	0
.........................................GCAACAACACCAACAGCAG...........................................................................................	19	0	10	0.10	1	0	1	0
................................................CACCAACAGCAGCAACAGCAGCA................................................................................	23	0	15	0.07	1	0	0	1
..................................................CCAACAGCAGCAACAGCAGCA................................................................................	21	0	20	0.05	1	0	1	0

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6540:17459062-17459212 -	dmo_1983	TTGTCG-CCGC-GC---------ATG-CGTGATCA------------GTT---GCAG---CAA--CAACAAC------AGCAACAACACCAACAG------------------CAGCAACAG---------CAGCAGCAG------------CA------A----------CAGCAGCA----------------ATTGCCTCCGC--------------------------------ATAGCGACAACGAGGAGGA------------------------------TG-----------------------AGCA------------TGA--------TGATGATT--------TCGAGCGCA--AATCCGTGG
droVir3	scaffold_13047:17059888-17060062 +		TTGTCG-CCGC-GC---------ATG-CGTGACCA------------GTTGCAGCAA---CAG--CAACAAC------AGCAACATCAACAACAA------------------CAGC---------AGCAACAACAGCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------CAATTGCCAGCTCACAGCGAAAACGAGGAGGATGA------------GGAGGAG------GAG-----------------------GAGCA------------TGA--------AGATGACT--------TTGAGCGCA--AGTCTGTGG
droGri2	scaffold_14906:3516240-3516423 +		CTATCG-CCGC-GC---------ATG-CGTGACCA------------GCT---GCAA---CAA--CAACAGC------AGCAGCAGCAACAGCAG------------------CAGCAGCAG---------CAACATCAG------------CA------A----------CAGCAGCAG-------------------------CTG-CAA-------------CGATTGCCAGCACACAGCGACAACGAGGAGGAGGAGCAGGAGCCGGAGGAGGAGGAGGAAGC-----------------------------------------TGA--------GGATGATT--------TTGAGCGCA--AGTCAGTGG
droWil2	scf2_1100000004902:4522055-4522175 -		TTGTCG-CCAC-GT---------ATG-CGTGAGCA------------ACT---GCAG---C-----------AACAGC---AC------------CAGCAGCACCAGCATC---------------------------CA------------G------TACAAA-------------------------------------------------------------------------ATAGTGATAACGAGGATGAGGATCA---------------A------GACC-----------------------------------------A--------AGATGACT--------TTGAACGCA--AATCCGTGG
dp5	3:13140019-13140151 +		TCGACG-GCGC-A-----------GG-CTTCCACA------TCC---GCT---GCGG---CAGCACAACAGC------AGCAGCAACAACAAC------------------AGCAGCAGCAG---------CAGCAACAG------------C------AACAGACAGCTGC---------------------CAACGGCG-----------------------------------------------------------------------------A------GAC--------------------G---GCCA------------ATAAGAATGGACAG--------G---------------CTTTCCTGG
droPer2	scaffold_6:3325454-3325592 +		CATGCG-ACGC-TC---------AAG-GCACAGCA------------GCA---GCAG---CAC--CAACAAC------AGCAACAACAGCAACAG------------------CAACAACAG---------CAACAGCAA------------CA------A----------CAGCAGCAG-------------------------CAG-CT---CAGTCTGGTGTC-----------------CG---------------------------------G------GTCG-----------------------AGCA------------ATA--------AGACACCC--------TCGAGCTCA--CGTC-----
droAna3	scaffold_13335:501243-501399 -		TTGCAG-CAGC-AC---------CTC-CAGCAGCA------------GCA---GCAG---C-----------AACAGC---AA------------CAGCAGCAGCAACAACAGCAGCAGCAG---------CAG------------------CAACAGCAG-------------------CAG---CAG----CAACAACAGCAGCA-G---------------------------------------------------------------------------------CAGCAA---------------CAGCAACGCGATGCAGCAAAAGAATTGGCGGAACTCCATGCAAA---------T---GCTGTGG
droBip1	scf7180000396133:10986-11140 -		TGATTG-CAACGCC---------ATGGTATCGCCA------------ACA---G--------------GAGGAGCAGC---AG------------CAGCAGCAGC-TC------------------AACAGCAACAGCAG------------CA------A----------CACCAGCAGCAG-------CA------------A----CAG---------GCGGC-----------------TG---CTG------------------------------------CCG---------------CGGTGGCAGCTGCCGGAGGCGGAATGG-------GAGTG-GC--------TCAGGCTCAGGGATCCGTGT
droKik1	scf7180000302698:608672-608806 +		GTGTCAGCCGC-C--------------------------CAGCAGCAGTT---GCAA---CAT--CAACAAC------AGCAACAGCAGCAGCAG------------------CAGC---------------AGCATCTGCAGCAGCAGCAGCA----------------------GCATCAGCAGGTG----CAGCA-----------------------------------------T--------------------------------------A------GTCAC---------------CACCAGCAGCAACAA-------------------CAT--------GCT------G----C---CCAGCAG
droFic1	scf7180000454065:151838-151981 -		TTGCTG-CTGC-AGC--------GGC-GGTAAACA------------GTG---GCAA---CAG-----TGGCAGCAGC---AA------------CAACAACAACAACAACAGCAGCAGTGG---------CAA------------------CAACAGCAG-------------------CAG---CGG----CAACAGCGACAG-------------------------------------------TGG---------------------------------------CAACGA------------TGGCAGCAT------------GA--------CGGGATCC--------TCGGG-------AACCATGG
droEle1	scf7180000490994:157072-157223 +		TA-CCG-CAGC-AC---------ATG-CATTGCCTGCCACAGCA---GCA---ACAA---CAG-----CAACAGCAACAGCAA---CAACAAC------------AGCAA---CAGC---AACAGCAACAGCAACAGCAG------------CA------G----------CAACAACAGCA-------G---CA---------A-------------------------------------------CAG---------------------------A------AACGA------------------CGGCAGCAA------------CA--------CAAAATTC--------CAGAGCG------CACGCGT
droRho1	scf7180000777610:23604-23735 -		TTGCCG-CCGC-GG---------TGG-CAGCA---------------GCT---GC-G---CAG--CACCAAC------AGCAA------------------------------CAGCAGCAG---CAACAGCAGCAGCAG------------CA------G----------CAACAACAGCA-------GCA------------G----CAGGCCAAGCT-------------------G----------------ATGG------------GCGGCGG------GGT--------------------G---GACA---------------------------------------TGAAGCCCA--TGTTCCTGG
droBia1	scf7180000302041:565428-565578 +		CAGCAC-CAGC-AG---------TTG-CAGGAGCA------------AAT---GCAG---G-----------AGCAGC---AG------------CAGCAGCAACAACAACAGCAGCAACAG---------CAACAGCAG------------C------AA-------------------CCC---CAA----CAGCAGCACCAGCA-G---------------------------------------------------------------------------------CAGCAA---------------CAGGTGCACAAGTTCATCGA--------TGAGCTGA--------CCAAGTCCA--CATCGGTGG
droTak1	scf7180000415878:580275-580413 +		CGGCAG-CCGC-GGCGGCCTTTAATG-----------CAGC------GCA---GCAG---CAG--CAACAGC------AGCAACATCAACACC------------------AGCAGCAGCAG---------CAACACCAGCAATCGCAG---TC------G----------CAACAGCAG-------------------------CA-G---------------------------------------------------------------------------------CAGCAACAGCAGCAATCCCAGCAGCA--------------------------------------------------ACTCCATGC
droEug1	scf7180000408193:274067-274214 +		TCACCG-CAGC-AG---------CAT-CAGCAACA------------GTT---GCAG---C-----------AGCAGC---AC------------CAGCAACAACAACATCACCAGCAGCAG---------CAA------------------CAGCAGCAA-------------------CAT---CAG----CAACATCACCAGCA-G---------------------------------------------------------------------------------CAGCAA---------------CAGCAAAACGAATC---GGA--------TGTCGTTC--------CCATTAGCA--CAGCCATGG
dm3	chr2R:6121437-6121580 -		CGAC-G-CGTT-GC---------ATG-----------TGCA------GCA---GCAA---CAG--CAACAGC------AGCAGCAACATCAGC------------------AGCAGCAGCAGCAGCAACAGCAACAGCAG------------CA------A----------CAACAGCAGCA-------GCA------------G----CAG---------GATAC-----------------GA---------------------------------A------AACGA---------------GGATGACAACGACCACAG---------------------------GCAAA---------C---GCGGAGG
droSim2	2r:6888832-6888975 -		CGAC-G-CGTT-GC---------ATG-----------TGCAGCAGCAGCA---GCAG---CAA--CAGCAGC------AGCAACATCAGCAGCAG------------------CAGC---------AACAGCAACAGCAG------------CA------A----------CAACAGCAGCAG-------CAGCAGC-------------AG---------GATAC-----------------GA---------------------------------A------AACGA---------------GGATGACAACGACCACAG---------------------------GCAAA---------C---GCGGAGG
droSec2	scaffold_1:3728041-3728172 -		CGAC-G-CGTT-GC---------ATG-----------TGCA------GCA---GCAG---CAG--CAACAGC------AGCAACATCAGCAGCAG------------------CAGC---------AACAGCAACAGCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG---------GATAC-----------------GA---------------------------------A------AACGA---------------GGATGACAACGACCACAG---------------------------GCAAA---------C---GCGGAGG
droYak3	3L:8421663-8421809 -		TTGCTG-CCGC-AG---------CGG-CG--GGCA------ATG---GCG---GTGGCAACAG-----CAGCAGCAAC---AA------------TAGCAACAATAACAACAACAGCAGCGG---------CAA------------------CAACAGCAG-------------------CAG---CGG----CAACAGCGACAG-------------------------------------------CGG---------------------------------------CAACGA------------TGGCAGCAT------------GA--------CAGGATCC--------TCAAGC-------ACCATGG
droEre2	scaffold_4784:9686567-9686705 +		GCAGCA-CCAC-C-----------AC-CAGCA---------------GCA---GCAG---CAG-----CAAC------ATCAACAACAC------CAGCAGCAGCAGCATCAACAGCAGCAA---------CAG------------------CAACATCAA-------------------CAT---CAA----CAGCAGCAACACCA-G---------------------------------------------------------------------------------CAGCAG---------------CAGCAACA--------------------CAAGCAGC--------TCCAGC------AGCAGCAG

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

TTGTCG-CCGC-GC---------ATG-CGTGATCA------------GTT---GCAG---CAA--CAACAAC------AGCAACAACACCAACAG------------------CAGCAACAG---------CAGCAGCAG------------CA------A----------CAGCAGCA----------------ATTGCCTCCGC--------------------------------ATAGCGACAACGAGGAGGA------------------------------TG-----------------------AGCA------------TGA--------TGATGATT--------TCGAGCGCA--AATCCGTGG	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
......................................................................................CACCAACAG------------------CAGCAACAG---------CAGC................................................................................................................................................................................................................................................	22	16	2.38	38	8	1	0	0	29	0
......................................................................................CACCAACAG------------------CAGCAACAG---------CAG.................................................................................................................................................................................................................................................	21	17	0.29	5	2	0	0	0	3	0
.......................................................................................ACCAACAG------------------CAGCAACAG---------CAGC................................................................................................................................................................................................................................................	21	20	0.15	3	1	0	0	0	2	0
...............................................................................GCAACAACACCAACAG------------------CAG...................................................................................................................................................................................................................................................................	19	10	0.10	1	1	0	0	0	0	0
......................................................................................CACCAACAG------------------CAGCAACAG---------CAGCA...............................................................................................................................................................................................................................................	23	15	0.07	1	0	1	0	0	0	0
........................................................................................CCAACAG------------------CAGCAACAG---------CAGCA...............................................................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0

droVir3

TTGTCG-CCGC-GC---------ATG-CGTGACCA------------GTTGCAGCAA---CAG--CAACAAC------AGCAACATCAACAACAA------------------CAGC---------AGCAACAACAGCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------CAATTGCCAGCTCACAGCGAAAACGAGGAGGATGA------------GGAGGAG------GAG-----------------------GAGCA------------TGA--------AGATGACT--------TTGAGCGCA--AGTCTGTGG	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
........................................................................................................................................GCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------C.....................................................................................................................................................	23	20	0.15	3	0	0	2	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................GAGGAGGATGA------------GGAGGAG------..........................................................................................	18	7	0.14	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................TGCAGCAA---CAG--CAACAAC------AGCA.....................................................................................................................................................................................................................................................................................................	22	9	0.11	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................AGC---------AGCAACAACAGCAG------------CA------.......................................................................................................................................................................................................................	19	20	0.10	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	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................AGCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------C.....................................................................................................................................................	24	20	0.10	2	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	0	0	0	0	0	0
........................................................................................................................................................CA------A----------CAACAGCAG-------------------------CAG-CAG-------------CAA...................................................................................................................................................	21	20	0.10	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	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
........................................................................................................................................................CA------A----------CAACAGCAG-------------------------CAG-CAG-------------C.....................................................................................................................................................	19	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................................AG------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------......................................................................................................................................................	20	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................AGCAG------------CA------A----------CAACAGCAG-------------------------CA........................................................................................................................................................................	19	20	0.10	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	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................ATCAACAACAA------------------CAGC---------AGCA.....................................................................................................................................................................................................................................................	19	14	0.07	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................A------A----------CAACAGCAG-------------------------CAG-CAG-------------CAAT..................................................................................................................................................	21	16	0.06	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................AACAGCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------CA....................................................................................................................................................	28	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................AACAGCAG------------CA------A----------CAACAGCAG-------------------------CA........................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................ACAGCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------C.....................................................................................................................................................	26	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................CAACAA------------------CAGC---------AGCAACAACAGCAG------------CA------.......................................................................................................................................................................................................................	26	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................AACAGCAG------------CA------A----------CAACAGCAG-------------------------CAG-C.....................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................GCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------CA....................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................CAACAGCAG------------CA------A----------CAACAGCAG-------------------------CAG-CA....................................................................................................................................................................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................GCAG------------CA------A----------CAACAGCAG-------------------------CAG-CA....................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................CAACAGCAG------------CA------A----------CAACAGCAG-------------------------CA........................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................AACAGCAG------------CA------A----------CAACAGCAG-------------------------CAG-CA....................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................G------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------CA....................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................GC---------AGCAACAACAGCAG------------CA------A----------CA..........................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................GA------------GGAGGAG------GAG-----------------------GAGC............................................................	16	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.......................................................................................................................................AGCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------CA....................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................CAGCAG------------CA------A----------CAACAGCAG-------------------------CAG-......................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................AA------------------CAGC---------AGCAACAACAGCAG------------CA------.......................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................AACAACAGCAG------------CA------A----------CAACAGCAG-------------------------C.........................................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................AACAA------------------CAGC---------AGCAACAACAGCA............................................................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................AG------------CA------A----------CAACAGCAG-------------------------CAG-CAG-------------CAA...................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................A------A----------CAACAGCAG-------------------------CAG-CAG-------------C.....................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................AGCAACAACAGCAG------------CA------A----------CAACAGCA....................................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................TGCAGCAA---CAG--CAACAAC------A........................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................CAG------------CA------A----------CAACAGCAG-------------------------CAG-C.....................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................CAGC---------AGCAACAACAGCAG------------CA------A----------CA..........................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................CAA------------------CAGC---------AGCAACAACAGCAG------------CA------.......................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................AACAACAA------------------CAGC---------AGCAACA..................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droGri2

CTATCG-CCGC-GC---------ATG-CGTGACCA------------GCT---GCAA---CAA--CAACAGC------AGCAGCAGCAACAGCAG------------------CAGCAGCAG---------CAACATCAG------------CA------A----------CAGCAGCAG-------------------------CTG-CAA-------------CGATTGCCAGCACACAGCGACAACGAGGAGGAGGAGCAGGAGCCGGAGGAGGAGGAGGAAGC-----------------------------------------TGA--------GGATGATT--------TTGAGCGCA--AGTCAGTGG	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
..................................A------------GCT---GCAA---CAA--CAACAGC------A........................................................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0
......................................................................GC------AGCAGCAGCAACAGCAG------------------CAGCA.................................................................................................................................................................................................................................................................	24	20	0.05	1	1	0
........................................................................................ACAGCAG------------------CAGCAGCAG---------CAAC................................................................................................................................................................................................................................................	20	20	0.05	1	1	0
...........................................................................................GCAG------------------CAGCAGCAG---------CAACATC.............................................................................................................................................................................................................................................	20	20	0.05	1	1	0
............................................................CAA--CAACAGC------AGCAGCAGCAACA............................................................................................................................................................................................................................................................................................	23	20	0.05	1	1	0

droWil2

TTGTCG-CCAC-GT---------ATG-CGTGAGCA------------ACT---GCAG---C-----------AACAGC---AC------------CAGCAGCACCAGCATC---------------------------CA------------G------TACAAA-------------------------------------------------------------------------ATAGTGATAACGAGGATGAGGATCA---------------A------GACC-----------------------------------------A--------AGATGACT--------TTGAACGCA--AATCCGTGG	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
....................................................................................................................................................................................................................................................ATAACGAGGATGAGGATCA---------------A------..........................................................................................	20	1	1.00	1	0	0	1	0	0

dp5

TCGACG-GCGC-A-----------GG-CTTCCACA------TCC---GCT---GCGG---CAGCACAACAGC------AGCAGCAACAACAAC------------------AGCAGCAGCAG---------CAGCAACAG------------C------AACAGACAGCTGC---------------------CAACGGCG-----------------------------------------------------------------------------A------GAC--------------------G---GCCA------------ATAAGAATGGACAG--------G---------------CTTTCCTGG	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
.........................................................................................CAAC------------------AGCAGCAGCAG---------CAGC................................................................................................................................................................................................................................................	19	20	0.15	3	0	3	0	0	0	0	0	0	0	0
..................................................................................GCAACAACAAC------------------AGCAGCAGC...............................................................................................................................................................................................................................................................	20	20	0.10	2	0	2	0	0	0	0	0	0	0	0
..................................................................AACAGC------AGCAGCAACAACAAC------------------........................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0
................................................................................................................GCAGCAGCAG---------CAGCAACAG------------C------........................................................................................................................................................................................................................	20	20	0.05	1	0	0	1	0	0	0	0	0	0	0
....................................................................................................................CAGCAG---------CAGCAACAG------------C------AACAG...................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................AACAGC------AGCAGCAACAACAAC------------------AG......................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0
...............................................................................GCAGCAACAACAAC------------------AGCAGCAGC...............................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	1	0	0	0	0	0	0	0
..................................................................................GCAACAACAAC------------------AGCAGCAGCAG---------CAG.................................................................................................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................CAAC------------------AGCAGCAGCAG---------CAGCAACAG------------C------A.......................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................CAACAACAAC------------------AGCAGCAGCAG---------C...................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0
...................................................................ACAGC------AGCAGCAACAACAAC------------------A.......................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	1	0	0	0
...................................................................................................................GCAGCAG---------CAGCAACAG------------C------AACAG...................................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0
.........................................................................................CAAC------------------AGCAGCAGCAG---------CAGCAACA............................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
....................................................................................AACAACAAC------------------AGCAGCAGCAG---------CAGC................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
....................................................................CAGC------AGCAGCAACAACAAC------------------A.......................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	1	0	0	0	0	0	0	0
...............................................................................................................AGCAGCAGCAG---------CAGCAACAG------------C------A.......................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	1
.......................................................................C------AGCAGCAACAACAAC------------------AGCAG...................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................ACAGC------AGCAGCAACAACAAC------------------........................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	1	0	0	0	0	0	0
...................................................................................CAACAACAAC------------------AGCAGCAGCAG---------....................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
......................................................................................CAACAAC------------------AGCAGCAGCAG---------CAGCAAC.............................................................................................................................................................................................................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0

droPer2

CATGCG-ACGC-TC---------AAG-GCACAGCA------------GCA---GCAG---CAC--CAACAAC------AGCAACAACAGCAACAG------------------CAACAACAG---------CAACAGCAA------------CA------A----------CAGCAGCAG-------------------------CAG-CT---CAGTCTGGTGTC-----------------CG---------------------------------G------GTCG-----------------------AGCA------------ATA--------AGACACCC--------TCGAGCTCA--CGTC-----	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
...............................AGCA------------GCA---GCAG---CAC--CAACAAC------A........................................................................................................................................................................................................................................................................................................	22	10	0.10	1	0	0	1	0	0	0
..........................................................................................AACAG------------------CAACAACAG---------CAACAG..............................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
.......................................................................................................................................AGCAA------------CA------A----------CAGCAGCAG-------------------------CAG-C.....................................................................................................................................................................	21	20	0.05	1	0	0	0	0	1	0
.........................................................................................................................G---------CAACAGCAA------------CA------A----------CAGCAGCAG-------------------------C.........................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0
.....................................................................AAC------AGCAACAACAGCAACAG------------------......................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0

droAna3

TTGCAG-CAGC-AC---------CTC-CAGCAGCA------------GCA---GCAG---C-----------AACAGC---AA------------CAGCAGCAGCAACAACAGCAGCAGCAG---------CAG------------------CAACAGCAG-------------------CAG---CAG----CAACAACAGCAGCA-G---------------------------------------------------------------------------------CAGCAA---------------CAGCAACGCGATGCAGCAAAAGAATTGGCGGAACTCCATGCAAA---------T---GCTGTGG	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.....................................................................................................................................................................................................................................................................................................CAA---------------CAGCAACGCGATGCAGC...............................................	20	1	1.00	1	0	1	0	0	0	0
.........................................................................................................................................................................................................GCAGCA-G---------------------------------------------------------------------------------CAGCAA---------------CAGCAACG........................................................	21	7	0.29	2	0	0	0	0	0	2
...................................................................................................................................CAG------------------CAACAGCAG-------------------CAG---CAG----CAACAACAGC............................................................................................................................................................................	28	12	0.17	2	1	1	0	0	0	0
.........................................................................................................................................................AACAGCAG-------------------CAG---CAG----CAACAAC...............................................................................................................................................................................	21	20	0.15	3	0	0	0	0	0	3
..........................................................................CAGC---AA------------CAGCAGCAGCAACAACA.......................................................................................................................................................................................................................................................................	23	20	0.10	2	0	0	0	0	0	2
....................................................................................................................................AG------------------CAACAGCAG-------------------CAG---CAG----CAACAACAGC............................................................................................................................................................................	27	12	0.08	1	0	1	0	0	0	0
.......................................................AG---C-----------AACAGC---AA------------CAGCAGCAG...............................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
.................................................................................................................CAGCAGCAG---------CAG------------------CAACAGCAG-------------------CA.................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	1
.......................................................................................................GCAACAACAGCAGCAGCAG---------CA..................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1
....................................................................................................................................................................................................CAACAGCAGCA-G---------------------------------------------------------------------------------CAGCAA---------------CAGC............................................................	22	20	0.05	1	1	0	0	0	0	0
........................................................................................................CAACAACAGCAGCAGCAG---------C...................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
.............................................................................C---AA------------CAGCAGCAGCAACAACAGCAGCA.................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0
........................................................................................................................................................CAACAGCAG-------------------CAG---CAG----CAAC..................................................................................................................................................................................	19	20	0.05	1	0	0	1	0	0	0
..............................................................................................................................................................CAG-------------------CAG---CAG----CAACAACAGC............................................................................................................................................................................	19	20	0.05	1	0	0	1	0	0	0
.....................................................................................................................................................................................AG---CAG----CAACAACAGCAGCA-G---------------------------------------------------------------------------------CAGC.................................................................................	24	20	0.05	1	1	0	0	0	0	0
.........................................................................................................AACAACAGCAGCAGCAG---------CAG------------------CAAC...........................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0
................................................................................................AGCAGCAGCAACAACAGCAGC..................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
...........................................................................................................................................................................................AG----CAACAACAGCAGCA-G---------------------------------------------------------------------------------CAG..................................................................................	20	20	0.05	1	0	1	0	0	0	0
...............................................GCA---GCAG---C-----------AACAGC---AA------------CAGC....................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
.......................................................AG---C-----------AACAGC---AA------------CAGCAGCAGC..............................................................................................................................................................................................................................................................................	21	20	0.05	1	1	0	0	0	0	0
.....................................................................................................................................G------------------CAACAGCAG-------------------CAG---CAG----CAACAAC...............................................................................................................................................................................	23	20	0.05	1	1	0	0	0	0	0
.....................................................................................................CAGCAACAACAGCAGCAGC...............................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
...............................................................................................................................................................AG-------------------CAG---CAG----CAACAACAGCAGC.........................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
.................................................A---GCAG---C-----------AACAGC---AA------------CAGCAGCAGC..............................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0

droBip1

TGATTG-CAACGCC---------ATGGTATCGCCA------------ACA---G--------------GAGGAGCAGC---AG------------CAGCAGCAGC-TC------------------AACAGCAACAGCAG------------CA------A----------CACCAGCAGCAG-------CA------------A----CAG---------GCGGC-----------------TG---CTG------------------------------------CCG---------------CGGTGGCAGCTGCCGGAGGCGGAATGG-------GAGTG-GC--------TCAGGCTCAGGGATCCGTGT	Size	Hit Count	Total Norm	Total
No Reads

droKik1

GTGTCAGCCGC-C--------------------------CAGCAGCAGTT---GCAA---CAT--CAACAAC------AGCAACAGCAGCAGCAG------------------CAGC---------------AGCATCTGCAGCAGCAGCAGCA----------------------GCATCAGCAGGTG----CAGCA-----------------------------------------T--------------------------------------A------GTCAC---------------CACCAGCAGCAACAA-------------------CAT--------GCT------G----C---CCAGCAG	Size	Hit Count	Total Norm	Total
No Reads

droFic1

TTGCTG-CTGC-AGC--------GGC-GGTAAACA------------GTG---GCAA---CAG-----TGGCAGCAGC---AA------------CAACAACAACAACAACAGCAGCAGTGG---------CAA------------------CAACAGCAG-------------------CAG---CGG----CAACAGCGACAG-------------------------------------------TGG---------------------------------------CAACGA------------TGGCAGCAT------------GA--------CGGGATCC--------TCGGG-------AACCATGG	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TA-CCG-CAGC-AC---------ATG-CATTGCCTGCCACAGCA---GCA---ACAA---CAG-----CAACAGCAACAGCAA---CAACAAC------------AGCAA---CAGC---AACAGCAACAGCAACAGCAG------------CA------G----------CAACAACAGCA-------G---CA---------A-------------------------------------------CAG---------------------------A------AACGA------------------CGGCAGCAA------------CA--------CAAAATTC--------CAGAGCG------CACGCGT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TTGCCG-CCGC-GG---------TGG-CAGCA---------------GCT---GC-G---CAG--CACCAAC------AGCAA------------------------------CAGCAGCAG---CAACAGCAGCAGCAG------------CA------G----------CAACAACAGCA-------GCA------------G----CAGGCCAAGCT-------------------G----------------ATGG------------GCGGCGG------GGT--------------------G---GACA---------------------------------------TGAAGCCCA--TGTTCCTGG	Size	Hit Count	Total Norm	Total
No Reads

droBia1

CAGCAC-CAGC-AG---------TTG-CAGGAGCA------------AAT---GCAG---G-----------AGCAGC---AG------------CAGCAGCAACAACAACAGCAGCAACAG---------CAACAGCAG------------C------AA-------------------CCC---CAA----CAGCAGCACCAGCA-G---------------------------------------------------------------------------------CAGCAA---------------CAGGTGCACAAGTTCATCGA--------TGAGCTGA--------CCAAGTCCA--CATCGGTGG	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CGGCAG-CCGC-GGCGGCCTTTAATG-----------CAGC------GCA---GCAG---CAG--CAACAGC------AGCAACATCAACACC------------------AGCAGCAGCAG---------CAACACCAGCAATCGCAG---TC------G----------CAACAGCAG-------------------------CA-G---------------------------------------------------------------------------------CAGCAACAGCAGCAATCCCAGCAGCA--------------------------------------------------ACTCCATGC	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TCACCG-CAGC-AG---------CAT-CAGCAACA------------GTT---GCAG---C-----------AGCAGC---AC------------CAGCAACAACAACATCACCAGCAGCAG---------CAA------------------CAGCAGCAA-------------------CAT---CAG----CAACATCACCAGCA-G---------------------------------------------------------------------------------CAGCAA---------------CAGCAAAACGAATC---GGA--------TGTCGTTC--------CCATTAGCA--CAGCCATGG	Size	Hit Count	Total Norm	Total
No Reads

dm3

CGAC-G-CGTT-GC---------ATG-----------TGCA------GCA---GCAA---CAG--CAACAGC------AGCAGCAACATCAGC------------------AGCAGCAGCAGCAGCAACAGCAACAGCAG------------CA------A----------CAACAGCAGCA-------GCA------------G----CAG---------GATAC-----------------GA---------------------------------A------AACGA---------------GGATGACAACGACCACAG---------------------------GCAAA---------C---GCGGAGG	Size	Hit Count	Total Norm	Total	GSM154618 Ovary	GSM154620 Ovary	GSM154621 Ovary	GSM154622 Ovary	GSM180328 Head	GSM180329 Mixed-body	GSM180330 Embryo	GSM180331 Embryo	GSM180332 Embryo	GSM180333 Embryo	GSM180334 Larvae	GSM180335 Disc	GSM180336 Pupae	GSM180337 S2	GSM231091 Ovary	GSM239041 Head	GSM239050 Head	GSM239051 S2	GSM239052 S2	GSM246084 Head	GSM266765 S2	GSM280082 Ovary	GSM280083 Ovary	GSM280084 Ovary	GSM280085 Testis	GSM280086 Ovary	GSM280087 S2-NP	GSM280088 S2-NP	GSM312995 Head	GSM313160 Head	GSM313161 Head	GSM313162 Head	GSM313163 Head	GSM313164 Head	GSM313165 Head	GSM343287 Embryo	GSM379050 Ovary	GSM379051 Ovary	GSM379052 Ovary	GSM379053 Ovary	GSM379054 Ovary	GSM379055 Ovary	GSM379056 Ovary	GSM379057 Ovary	GSM379058 Ovary	GSM379059 Ovary	GSM379060 Ovary	GSM379061 Ovary	GSM379062 Ovary	GSM379063 Ovary	GSM379064 Ovary	GSM379065 Ovary	GSM379066 Ovary	GSM379067 Ovary	GSM424739 S2	GSM424740 S2	GSM424741 S2	GSM467729 Female-body	GSM467730 Female-body	GSM467731 Female-body	M002 CS	M003 Male-body	M004 Male-body	M005 ML-DmD32	M006 ML-DmD32	M029 OSC	M030 OSC	M031 OSC	M032 S2-R+	M033 S2-R+	M034 S2-R+	M035 S2-R+	M036 S2-R+	M037 S2-R+	M038 S2-R+	M039 S2-R+	M048 S2-R+	OSS2 OSS	OSS6 OSS	OSS7 OSS	OSS8 OSS	S1 Head	S10 Embryo	S11 Embryo	S12 Embryo	S13 Embryo	S14 Embryo	S15 S2-GMR	S16 Kc	S17 Larvae	S18 Larvae	S19 Pupae	S2 Head	S20 Pupae	S21 Disc	S22 Head	S23 Female-body	S24 Male-body	S25 Larvae	S26 Larvae	S27 Pupae	S28 Pupae	S29 Head	S3 Male-body	S30 S2-GMR	S31 S2	S32 S2	S33 Kc	S34 Kc	S35 Kc	S4 Female-body	S5 Disc	S6 Embryo	S7 Embryo	S8 S2	S9 Embryo	SRR001337 Head	SRR001338 Head	SRR001339 Head	SRR001340 Head	SRR001341 Head	SRR001342 Head	SRR001343 Head	SRR001344 Head	SRR001345 Head	SRR001346 Head	SRR001347 Head	SRR001348 Head	SRR001349 Head	SRR001664 Head	SRR010951 Ovary	SRR010952 Ovary	SRR010953 Ovary	SRR010954 Ovary	SRR010955 Ovary	SRR010956 Ovary	SRR010957 Ovary	SRR010958 Ovary	SRR010959 Ovary	SRR010960 Ovary	SRR014268 Embryo	SRR014269 Embryo	SRR014270 Embryo	SRR014271 Embryo	SRR014272 Embryo	SRR014273 Ovary	SRR014274 Ovary	SRR014275 Ovary	SRR014276 Ovary	SRR014277 Ovary	SRR014278 Ovary	SRR014279 Ovary	SRR014280 Ovary	SRR014281 Ovary	SRR014282 Ovary	SRR023197 S2	SRR023399 S2	SRR023400 S2	SRR023402 S2	SRR023407 S2	SRR029028 S2	SRR029029 S2	SRR029030 S2	SRR029031 S2	SRR029032 S2	SRR029033 S2	SRR029608 Head	SRR029633 Head	SRR030145 gb3	SRR031692 Head	SRR031693 Head	SRR031694 Head	SRR031696 Head	SRR031697 Head	SRR031698 Head	SRR031699 Head	SRR031700 Head	SRR031701 Head	SRR031702 Head	SRR031703 Head	SRR031704 Head	SRR032092 S2	SRR032093 S2	SRR032094 S2	SRR032095 S2-NP	SRR032096 S2-NP	SRR032152 Head	SRR060643 Testis	SRR060644 Ovary	SRR060645 Testis	SRR060646 Ovary	SRR060647 Ovary	SRR060648 Ovary	SRR060649 Ovary	SRR060650 Testis	SRR060651 Ovary	SRR060652 Testis	SRR060653 Ovary	SRR065151 Ovary	SRR065152 Ovary	SRR065153 Ovary	SRR065154 Ovary	SRR065155 Ovary	SRR065800 Ovary	SRR065801 Ovary	SRR065802 Ovary	SRR065803 Ovary	SRR065804 Ovary	SRR065805 Ovary	SRR065806 Ovary	SRR065807 Ovary	SRR097865 S2-NP	SRR097866 S2-NP	SRR097867 S2-NP	SRR298536 Ovary	SRR298537 Ovary	SRR298711 Ovary	SRR298712 Ovary	SRR317110 Ovary	SRR317111 Ovary	SRR317112 Ovary	SRR317113 Ovary	SRR317114 Ovary	SRR317115 Ovary	SRR317116 Ovary	SRR317117 Ovary	SRR341115 S2	SRR341116 S2	SRR341117 S2	SRR341118 S2	SRR351332 Mixed-body	SRR351333 Mixed-body	T004 OSC	T005 CME-L1	V001 Embryo	V002 Embryo	V003 S2	V006 Female-body	V007 Head	V008 S2	V009 CME-L1	V010 ML-DmD20-C5	V011 Sg4	V012 Male-body	V013 Head	V014 DTT	V015 DreRFHV	V018 Kc167	V019 GM2	V020 S2-R+	V021 ML-DmD21	V022 ML-DmD32	V023 Head	V024 Kc167	V025 S2-R+	V026 1182-2H	V027 ML-DmD21	V028 CME-W1-Cl.8+	V029 ML-DmD9	V030 ML-DmD8	V031 GM2	V032 S1	V033 CME-W1-Cl.8+	V034 ML-DmD16-C3	V035 ML-DmD32	V036 ML-DmD20-C5	V037 S2	V038 S2	V063 Ovary	V0632 Ovary	V064 Ovary	V0642 Ovary	V065 Ovary	V0652 Ovary	V066 Ovary	V0662 Ovary	V067 S2-NP	V073 mbn2	V074 S3	V075 ML-DmBG1-C1	V076 ML-DmBG3-C2	V077 Head	V078 Head	V079 Head	V080 Head	V081 Embryo	V082 Embryo	V083 Male-body	V084 Female-body	V085 CME-W2	V086 Female-body	V088 Ovary	V0882 Ovary	V089 Ovary	V0892 Ovary	V090 Male-body	V091 fGS/OSS	V092 Male-body	V093 Male-body	V094 S2-R+	V095 S2-R+	V096 Ovary	V097 Ovary	V098 Ovary	V125 ML-DmD9	V126 CME-L1	V127 G2	V128 S3	V129 ML-DmBG1-C1	V130 ML-DmBG3-C2	V131 ML-DmD16-C3	V132 ML-DmD32	V133 Sg4	V134 ML-DmD8	V135 CME-W2	V136 Male-body	V137 Head	V138 Male-body	V139 Female-body	V140 Female-body	V141 Female-body	V142 Female-body	V144 OSC	V145 S2	V146 S1	V147 1182-2H	V148 mbn2	GSM1528798 follicle cells
.............................................................................................................................................................................................................................................................................................AACGA---------------GGATGACAACGACC........................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................CAGCAACATCAGC------------------AGCAGCAGCAGCA...........................................................................................................................................................................................................................................................	26	15	0.53	8	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................CAG------------CA------A----------CAACAGCAGCA-------GCA------------G----......................................................................................................................................................................	21	20	0.50	10	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	9	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................AACAGCAACAGCAG------------CA------A----------CAACAGC.....................................................................................................................................................................................................	24	4	0.50	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................A----------CAACAGCAGCA-------GCA------------G----CAG---------GA........................................................................................................................................................	21	5	0.40	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	0	0
...............................................................................GCAGCAACATCAGC------------------AGCAGCAGCAGCAG..........................................................................................................................................................................................................................................................	28	6	0.33	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
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droSim2

CGAC-G-CGTT-GC---------ATG-----------TGCAGCAGCAGCA---GCAG---CAA--CAGCAGC------AGCAACATCAGCAGCAG------------------CAGC---------AACAGCAACAGCAG------------CA------A----------CAACAGCAGCAG-------CAGCAGC-------------AG---------GATAC-----------------GA---------------------------------A------AACGA---------------GGATGACAACGACCACAG---------------------------GCAAA---------C---GCGGAGG	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
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.....................................................GCAG---CAA--CAGCAGC------AGCAAC...................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.........................................................................................CAGCAG------------------CAGC---------AACAGCAACAGCAG------------C..............................................................................................................................................................................................................................	25	20	0.05	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................G------------CA------A----------CAACAGCAGCAG-------CAG......................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
........................................................................................................................................................CA------A----------CAACAGCAGCAG-------CAGCAGC-------------.....................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
.................................................................................................................CAGC---------AACAGCAACAGCAG------------C..............................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................................................................CAG------------------CAGC---------AACAGCAACAGC.............................................................................................................................................................................................................................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSec2

CGAC-G-CGTT-GC---------ATG-----------TGCA------GCA---GCAG---CAG--CAACAGC------AGCAACATCAGCAGCAG------------------CAGC---------AACAGCAACAGCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG---------GATAC-----------------GA---------------------------------A------AACGA---------------GGATGACAACGACCACAG---------------------------GCAAA---------C---GCGGAGG	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
...................................................................................................................................CAACAGCAG------------CA------A----------CAACAGCAG-------------------------..........................................................................................................................................................................	21	20	0.05	1	1	0	0	0
.........................................................................................................................................CAG------------CA------A----------CAACAGCAG-------------------------CAG-CA....................................................................................................................................................................	20	20	0.05	1	0	1	0	0
........................................................................................................................................GCAG------------CA------A----------CAACAGCAG-------------------------CAG-CAG---------..........................................................................................................................................................	22	20	0.05	1	1	0	0	0
.........................................................................................................................................................A------A----------CAACAGCAG-------------------------CAG-CAG---------GT........................................................................................................................................................	19	20	0.05	1	0	0	1	0
..............................................................................AGCAACATCAGCAGCAG------------------C.....................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	1	0
.................................................................................................................................AGCAACAGCAG------------CA------A----------CAACAGCAG-------------------------C.........................................................................................................................................................................	24	20	0.05	1	1	0	0	0
..........................................................................................AGCAG------------------CAGC---------AACAGCAACA...............................................................................................................................................................................................................................................	19	20	0.05	1	0	0	1	0

droYak3

TTGCTG-CCGC-AG---------CGG-CG--GGCA------ATG---GCG---GTGGCAACAG-----CAGCAGCAAC---AA------------TAGCAACAATAACAACAACAGCAGCGG---------CAA------------------CAACAGCAG-------------------CAG---CGG----CAACAGCGACAG-------------------------------------------CGG---------------------------------------CAACGA------------TGGCAGCAT------------GA--------CAGGATCC--------TCAAGC-------ACCATGG	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
...........................................................................................................CAACAACAGCAGCGG---------CAA------------------CAACAGC........................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................G----CAACAGCGACAG-------------------------------------------CGG---------------------------------------CAAC.................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................AG-------------------CAG---CGG----CAACAGCGACAG-------------------------------------------CGG---------------------------------------CA...................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................GA--------CAGGATCC--------TCAAGC-------ACCAT..	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
........CGC-AG---------CGG-CG--GGCA------ATG---GCG---GTGGC.............................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................AACAG-----CAGCAGCAAC---AA------------TAGCAAC.................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................AACAGCAGCGG---------CAA------------------CAACAGCAG-------------------CA.................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................................................................................G---------CAA------------------CAACAGCAG-------------------CAG---CGG----C.....................................................................................................................................................................................	20	5	0.20	1	0	0	0	0	1	0	0	0	0	0	0
..........................................................................................................ACAACAACAGCAGCGG---------CAA------------------CAA............................................................................................................................................................................................................................	22	5	0.20	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................................................................AACAACAACAGCAGCGG---------CAA------------------...............................................................................................................................................................................................................................	20	7	0.14	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................................................................CAACAGCAG-------------------CAG---CGG----CAAC..................................................................................................................................................................................	19	9	0.11	1	0	0	1	0	0	0	0	0	0	0	0
.........................................................................................................AACAACAACAGCAGCGG---------C...................................................................................................................................................................................................................................................	18	11	0.09	1	0	0	1	0	0	0	0	0	0	0	0

droEre2

GCAGCA-CCAC-C-----------AC-CAGCA---------------GCA---GCAG---CAG-----CAAC------ATCAACAACAC------CAGCAGCAGCAGCATCAACAGCAGCAA---------CAG------------------CAACATCAA-------------------CAT---CAA----CAGCAGCAACACCA-G---------------------------------------------------------------------------------CAGCAG---------------CAGCAACA--------------------CAAGCAGC--------TCCAGC------AGCAGCAG	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.............................................................................................................................................................TCAA-------------------CAT---CAA----CAGCAGCAACACCA-G---------------------------------------------------------------------------------.....................................................................................	25	1	1.00	1	1	0	0	0	0	0	0
.........................................................................................................AGCATCAACAGCAGCAA---------CAG------------------CAAC...........................................................................................................................................................................................................................	24	2	0.50	1	1	0	0	0	0	0	0
...................................................................................................................................CAG------------------CAACATCAA-------------------CAT---CAA----CAG...................................................................................................................................................................................	21	3	0.33	1	0	0	0	0	0	1	0
..................................................................................ACAACAC------CAGCAGCAGCAGC...........................................................................................................................................................................................................................................................................	20	6	0.17	1	0	0	0	0	1	0	0
.....A-CCAC-C-----------AC-CAGCA---------------GCA---GCAG---C..........................................................................................................................................................................................................................................................................................................................	21	17	0.06	1	0	0	0	0	0	1	0
...............................................................................................................AACAGCAGCAA---------CAG------------------CAACA..........................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0	0
........................................................................................................................................................................................................AACACCA-G---------------------------------------------------------------------------------CAGCAG---------------CAGCA...........................................................	19	20	0.05	1	1	0	0	0	0	0	0
..........C-C-----------AC-CAGCA---------------GCA---GCAG---CAG-----CA.................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1	0
....................................................................................AACAC------CAGCAGCAGCAGCA..........................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0	0
............C-----------AC-CAGCA---------------GCA---GCAG---CAG-----CA.................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	1	0	0	0
........CAC-C-----------AC-CAGCA---------------GCA---GCAG---C..........................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0	0

dmo_1983

scaffold_6540:17459112-17459162 -

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-7.1	-7.1	-6.8