dvi_5825

exon [dvir_GLEANR_7042:3]; CDS [Dvir\GJ21706-cds]; CDS [Dvir\GJ21706-cds]; exon [dvir_GLEANR_7042:4]; intron [Dvir\GJ21706-in]

Name	Class	Family	Strand
(CAA)n	Simple_repeat	Simple_repeat	+

##################################################------------------------------------------------------------------------------------################################################## ACAACAACAGCAGCAGCAGCAGCAGCAGCTGGTGGTGGAGTCACCTCCACGTCCGCAGCAGCAGCTGCTGCTGCAGCGAAAGCAGCGAGTACCTCGCCCAGCAACAACAATAACAACAACAACAACAACAGCAGCTGCCACAATGGGAACAAGCACAAGACGTCAAAGGGCAACAACAACAACA ************************************************((..((.((((..(((((((((........)))))).)))..)).))...)).)).............................************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR060667 160_females_carcasses_total	M047 female body	V116 male body	SRR060672 9x160_females_carcasses_total	SRR060686 Argx9_0-2h_embryos_total	V047 embryo	SRR060661 160x9_0-2h_embryos_total	M027 male body	SRR060668 160x9_males_carcasses_total	SRR060675 140x9_ovaries_total	SRR060676 9xArg_ovaries_total	SRR060679 140x9_testes_total	SRR060684 140x9_0-2h_embryos_total
...................................TGGTGTCACCTCCAAGTCCGCT...............................................................................................................................	22	3	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0
ACAACAACAGCAGCAGCAGCA...................................................................................................................................................................	21	0	20	0.25	5	0	4	0	0	0	0	0	0	0	0	0	1	0
....CAACAGCAGCAGCAGCAGCAGCAGC...........................................................................................................................................................	25	0	20	0.20	4	0	3	0	0	1	0	0	0	0	0	0	0	0
...............................................................................................................AACAACAACAACAACAACAGCAGCCGCC.............................................	28	1	9	0.11	1	1	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................GCCGAGCAATAACAATAACAACA..................................................................	23	2	9	0.11	1	0	0	1	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................AACAACAACAACAGCAGCT................................................	19	0	20	0.10	2	0	1	0	0	0	0	0	0	0	0	0	0	1
..AACAACAGCAGCAGCAGCAGCAGCA.............................................................................................................................................................	25	0	20	0.10	2	0	0	0	2	0	0	0	0	0	0	0	0	0
....................................................................................................................CAACAACAACAACAGCAGCTGC..............................................	22	0	16	0.06	1	0	0	0	0	0	0	1	0	0	0	0	0	0
..............AGCGGCAGCAGCGGCTGGTGG.....................................................................................................................................................	21	2	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................CAACAACAACAACAACAGCAGCT................................................	23	0	20	0.05	1	0	0	0	0	0	1	0	0	0	0	0	0	0
.......................................................................................................................CAACAACAACAGCAGCTGC..............................................	19	0	20	0.05	1	0	0	0	0	0	0	0	0	1	0	0	0	0
.........................................................................................................AACAATAACAACAACAACAACAA........................................................	23	0	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................CAGCAACAACAATAACAACAAC................................................................	22	0	20	0.05	1	0	0	0	0	0	0	0	0	0	1	0	0	0
..AACAACAGCAGCAGCAGCAGCAGCAGC...........................................................................................................................................................	27	0	20	0.05	1	0	0	0	0	0	1	0	0	0	0	0	0	0
........................................................................................................................................................GAACAAGACGTCATAGAG..............	18	3	20	0.05	1	0	0	0	0	0	0	0	1	0	0	0	0	0
..................................................................................................................AACAACAACAACAACAGCAG..................................................	20	0	20	0.05	1	0	0	0	0	1	0	0	0	0	0	0	0	0
............................................................................................................AATAACAACAACAACAACAACAGCA...................................................	25	0	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0	0	0
......ACAGCAGCAGCAGCAGCAGC..............................................................................................................................................................	20	0	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0

TGTTGTTGTCGTCGTCGTCGTCGTCGTCGACCACCACCTCAGTGGAGGTGCAGGCGTCGTCGTCGACGACGACGTCGCTTTCGTCGCTCATGGAGCGGGTCGTTGTTGTTATTGTTGTTGTTGTTGTTGTCGTCGACGGTGTTACCCTTGTTCGTGTTCTGCAGTTTCCCGTTGTTGTTGTTGT ************************************************((..((.((((..(((((((((........)))))).)))..)).))...)).)).............................************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	GSM1528803 follicle cells	SRR060665 9_females_carcasses_total	SRR060666 160_males_carcasses_total	SRR060678 9x140_testes_total	SRR060667 160_females_carcasses_total	SRR060672 9x160_females_carcasses_total	SRR060681 Argx9_testes_total	M047 female body	V053 head	V047 embryo
....................................................................................................................................................TGTTCGTGTTCTGCCGTATCA...............	21	3	2	5.50	11	11	0	0	0	0	0	0	0	0	0
....................................................................................................................................................TGTTCGTCTTCTGCCGTATCC...............	21	3	10	0.90	9	9	0	0	0	0	0	0	0	0	0
....................................................................................................................................................TGTTCGTGTTCTGCCGTATCT...............	21	3	7	0.71	5	5	0	0	0	0	0	0	0	0	0
......................................................................................CTCAGGGATCGGGTCGGTGT..............................................................................	20	3	9	0.67	6	6	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................GTGTTTTGCAGATTCCCGTAG..........	21	3	2	0.50	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................TGTTCGTGTTCTGCCGTATCC...............	21	2	2	0.50	1	1	0	0	0	0	0	0	0	0	0
.............................ACCACCACCCTAGGGGAGGT.......................................................................................................................................	20	3	5	0.40	2	0	0	0	1	0	0	1	0	0	0
.............CTCGTCGTCGTCGCCGGCCACCAC...................................................................................................................................................	24	3	12	0.25	3	3	0	0	0	0	0	0	0	0	0
.......................................CAGTGGAGGTTCAGGCGA...............................................................................................................................	18	2	4	0.25	1	0	0	1	0	0	0	0	0	0	0
....................................................................................................................................................TGTTCGTCTTCTGCAGTAT.................	19	2	5	0.20	1	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................CCATGTTCGTGTTCTGCTG....................	19	2	5	0.20	1	0	0	0	0	0	1	0	0	0	0
....................TCGTGGTCGAACACCACCTCC...............................................................................................................................................	21	3	5	0.20	1	0	0	0	0	1	0	0	0	0	0
...........................................................................................................................................................GTTTTGCAGATTCCCGTAG..........	19	3	20	0.10	2	0	0	0	0	0	0	0	1	0	1
.................................................................................................................................................CCTAGTTTGTGTTCTGGAG....................	19	3	11	0.09	1	1	0	0	0	0	0	0	0	0	0
..................................CAGATCAGTGGAGGTGTAG...................................................................................................................................	19	3	11	0.09	1	0	0	0	0	0	0	0	0	1	0
....................................................................................................................................................TGTTCGTGTTCTGCCGTA..................	18	2	14	0.07	1	1	0	0	0	0	0	0	0	0	0
.....TTGCCGTCGCCGTCGTCGTCGTCGACCACG.....................................................................................................................................................	30	3	16	0.06	1	1	0	0	0	0	0	0	0	0	0
...............................................................................................GGGGTCGTTGTTGTTATTGT.....................................................................	20	1	19	0.05	1	0	0	0	0	0	0	0	1	0	0
.....................................................................................................GTTGTTGTTATTGTTGTTGTTGTTG..........................................................	25	0	20	0.05	1	0	0	0	1	0	0	0	0	0	0

Species	Coordinate	ID	Alignment
droVir3	scaffold_12875:9324153-9324336 +	dvi_5825	ACAACAACAGCAGCAGCAGCA-------GCAGCAGCTG-GTGGTG---------GAGTCACCT---CCAC-----------------------GTCCGCAG---CAGCA---GCTGC---TGCTGCAGCGAAAGCA---GC---------GAGTA------CCTCGCCC---------------AGCAACAAC---AATAACAACAA---CAAC-------------------A---ACAACAGCAG------CTGCCACAAT------GGGAACAAGCACA--------------------------AGACGTCA---AA------GGGCAACAACAACA--ACA
droMoj3	scaffold_6359:3221681-3221860 +		GCAGCAACAGCAACAGCAGCA-------GCAGCAGCAG-CAGCAG---------GACGAGCAG---CAAC-----------------------AACAGCAG---CAGCA---ACAGC---AGCAGCAACAACAGCA---GC---------AACA-------------------------ACAACAGCAGCAACAGCAACAGCAGCAG---CAAC-------------------A---ACAACAGCAA------CAGCAGCAGC------AGCAACAACAACAGC--------------------------------AGCAG------CAGCAGCAACAACA--ACA
droGri2	scaffold_15245:2620309-2620480 +		ACAACAGCAGCAGCAGCAGCA-------GCAGTTGGCG-GA---------------GTCACCT---CAA--------------------------CATCAG---CAGCA---GCTGC---TGTGGCGGCGACAGCA---GC---------AAGTA------CCTCGCCC---------------AACAACAAC---AACAACAGC----------------------------A---ACAACAGCAG------CTGCCACAA---------TGGCAACAACAAG-------------------C-ACAAGACGTCA---AA------GGGCAATAGTAACA--GCA
droWil2	scf2_1100000004776:18558-18743 -		ACAACAACAGCAACAGCAACA-------ACAACAGCAG-CAGCAACAA------CAACAGCAGCAACAA--------------------------CAACAG---CTGCA---GCAGC---AACAGCAACAACAGCA---GC---------AGCA-------------------------ACAGCAACAGCAACAACAGCAGCAACAA---CAAC----------AGC------A---G------CAGCAACAACAGCAACAGC------AACAACAACAGCAGC--------------------------------AACAA------CAGCAACAGCAACA--ACA
dp5	3:11444804-11444974 -		GCAACATCATCATCAGCAGCA-------GCATCAGGCG-CAGCAG---------CAGGCACAG---CAAC-----------------------AGCAGCAG---CAACA---GCAGG---CTCAGCAGCAG---GCTCAGC---------AACA-------------------------------GCAACAAC---AACAGCAGCAA---CAAC-------------------A---GCAACAACAA------CAGCAACAAC------AGCAGCAACAGCAGC--------------------------------AGCAG------CAGCAGCAACAACA--ACA
droPer2	scaffold_4:6701423-6701611 +		ACAACATCAGCTGCAGCAGCA-------GCAACAACAG-CAGCAACATCAACTGCAGCAGCAG---CATCA-----------------G------CAGCAGCAACAGCA---GCTGC---AGCAGAAGCA---------GC---------AACA-------------------------------GCAACAAC---AGCAGCAGCAACATAAAC----------ATCAACAGCA---ACAACAGCAG------CAGCAACAGC------AGCAGCAGCAACAAC--------------------------------AGCAG------CAGCAACAACAGCA--GCA
droAna3	scaffold_13047:1229697-1229870 +		GCAGAAACAGCAACAGCAGCA-------GCAGCAGCAA-CTGTTG---------CAGAAACAG---CAAC-----------------------AACAGCAG---CAGCA---ACTGC---AGCAGCAGCAG---AA---AC---------AGCA-------------------------GCAACAGCAACAGC---AGCAACAGCAA---CAGC-------------------A---GCAACAACCA------CAACAACAAC------AAGTACTACTAAAGC--------------------------------CACAA------CAGCAACCTCAACA--GCA
droBip1	scf7180000395543:27206-27367 +		GCAACAACAGCAGCAGCCACC-CAACATGCAT-------CACCAT---CAACAGCAGCAGCAG---CATCA-----------------G------CAACAT------------------------CAACAACATCA---GC---------AG-------------------------------CAGCAGCAAC---ATCAACAACAA---CAAC-------------------A---TCAGCAGCAG------CAGCAACACA------TGCAACAGCAACAAC--------------------------------AACAG------CAACAACAACAACA--ACA
droKik1	scf7180000302809:430-628 +		CCAGCAGCAGCAGCACCAGCA-------GCAGCAGCTC-CAGCAG---------CAGCAGCACCAGCAG--------------------------CAGCAC---CACCA---GCAGC---AGCAGCACCAG---CA---GC------AGCAGCA-------------------------CCAGCAGCAG---------CAGCACCAG---CAGCAGCAGCACACAGCAGCAGCA---GCAACAGCAG------CAGCACCAA---------CAGCAGCAAAAGC---------------------ACCAGC-----CGCAGCATTCACAACAACAACAACA--GCA
droFic1	scf7180000453829:1093060-1093236 +		GCAACAACAGCAGCAGCAACA-------GCAACAGCAG-CAACTA---------CAACAACAA---CAG-----------------------------------CAGCAACAGCAGCAGCAACAACAGCA---------AC---------AGCA-------------------------GCAACTACAACAACAACAGCAGCAGCAG---CAGC----------AAC------T---A------CAACAA---CAACAGCACC------AAATACAACAACAGC--------------------------------AGCAACAGACACTGCAGCAACAGCA--ACA
droEle1	scf7180000490435:13097-13261 +		ACAGCAGCAGCAGCAACAGCA-------GCAACAGATG-CAAATG---------GCTCAGCAGCAACAG--------------------------------------------CAGGCGATTCAGCAGCAT---CATCAGCACCTCC---AACA-------GCAACA------------CCAACAGCAGCAAC---AGCAACAACAT----------------------------------------------CAACAGCAGC------AGCAGCAGCAACAAC--------------------------------AACAA------CAGCAACAACAACA--ACA
droRho1	scf7180000762853:122310-122495 -		GGCGCAACATCAGCAACAGGCGCA----ACAACAGCTG-CTAATG---------CAGCAACAACAACGA--------------------------CAGCAG---CAGCA---GCAAC---AACAACAACAACAACA---AC---------AACA-------------------------ACAACAACAACAAC---AACAACAACAA---CAAC-------------------A---ACAACAACAACAGCATCAACAGCATC------AACAGCATCAACAGC--------------------------------ATCAA------CAGCATCAACAACA--ACA
droBia1	scf7180000302126:3412214-3412396 -		ACAACAGCAGCAGCAGCAACA-------GCAGCAACTTGCGGCCG----------AGCAGCAG---CAGCGAG----------------------CGGCGG---CAGCG---GCGGC---CGTAGTGGCAGCGGCG---GT---------CAGTG------CGCTGCACAACGGCAACA--AGCAGCAGCA-C---TACAACAACAA---CAAC-------------------A---ACAATAACAA------TGGCAACAG------------------CAAG---------TCGAG-----GG---------------A------TCGCGACG--ATCA--CCT
droTak1	scf7180000415287:239519-239695 +		ACAGCAATATCAGCAGCAGTT-------ACAGCAGCAA-CAACTG---------CAGCAGCAA---CAATT-----------------GCAACAGCAA------CAGCT---ACAGC---AGCAGCAACTGCAGCA---GC------------A-------------------------------ACAACTAC---AGCAGCAACAA---CTAC----------AGCAGC---AACAATTACAG---------CAGCAGCAAC------TACAGCAGCAACAGT--------------------------------TGCAA------CAGCAACAACAGCA--ACA
droEug1	scf7180000409183:976119-976303 +		ACAGCAACAGCTGCAGCGGCG-------GCAGCAGCAG-CTGTTG---------TTGCCCTAC---CGAC--------------------------GGCTG---CAGCA---ACAGC---CGCAGCACC-ACAGCA---AC---------ATGCA--GGCT--TCGG---------------ACAGCAGCAGC---AGCAACAGCAA---CATC-------------------A---CCAGCAACAG------CAGCAACATCTCATCCAGCAAAGCCAACATC--------------------------------AACAG------CAGCAACACCAGCA--TCA
dm3	chrX:20411967-20412151 +		GCAACATCAGCAGCAGCAGCA-------ACATCAGTTG-TTGCAG------------CACCAG---CAACAAC--------------------A--GACAG---CAACA---ACGAC---CACAACGAA-GCGGCG---GA---------ATGCTGAGTCC--TCTGCC------------AGCAGCAATAAC---AACAACAACAA---CAAT-------------------A---CCAGCACCAC------CAACAATAAT------AATACTAACAATAAC--------------------------------AACAA------CAGCACCACGAACA--ACA
droSim2	3l:14393558-14393738 -		ACAGCAACAACAACAGCAACA-------GCAGCAGCAA-GCAATG-----------------A---CAGTGAGCGGTGCGACGGGCGGA------CAAGTG---CAACA---ACAGG---TGCAGCAAGTG----------------------------------------------------CAGCAG---------CAGGTCCAG---CAGCAACAGCAG-CAGCAGCAACA---ACAACAACAG------CTGCAACAT---------CACCA------AA---------TCATA-----GA-------CTCG---TC------GGGCAACA-TTACA--ACA
droSec2	scaffold_34:421730-421902 +		-CAGCAGCTGCAACAGCAACAGCA----GCAGCAGGTG-CA---------------ACAGCAACAACAT--------------------------CAGCAC---CAGCA---CCAGG---TGCAACAGCAACAGCA---GC---------ATCA-------------------------GCAGCAGCAGCAGC---AGCAACAGCAA---CAAC-------------------A---ACAACAACAG------CAACAACAAC------AACAACAACAACAAC--------------------------------AACAG------GTGCAGCACCAACA--GCA
droYak3	X:12362395-12362564 +		-CAGCAGCAGCAGCAGCACCA-------GCAGCAGCTG-CAGTTG---------CAACAGCAG---CAGC-----------------------ATCAGCAC---CAGCA---GCAGC---AGCAGCAGCAG---CAGCAGC---------AGTT----------------------------GCAGCTGCAAC---ACCAACAGCAC---C----------------------AGCAGCAGCAA---------CAGCAGCAAC------AACATCATCAGCATC--------------------------------AGCAT------CAGCAGCAGCAGCA--GCA
droEre2	scaffold_4690:13108090-13108275 +		GCAGCAGCAGCAGCAGCAGCG--------CAGCAGG-G-CGGCAG---------CAACAG------CCTCA-----------------G------CGGCAG---CAGCA---ACTCC---TGCCACACCAACAGCA---GC---------GGC-------------------------------------------AACAATAATAA---TAAT-------------------A---ACAACAACAA------TAACAACAAC------AACTCCAGCAGCAACAACAACAACACTAATAGTGGG--AAAACCTCA---GC------GGCCAGCAATGGCGGCACA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droVir3

ACAACAACAGCAGCAGCAGCA-------GCAGCAGCTG-GTGGTG---------GAGTCACCT---CCAC-----------------------GTCCGCAG---CAGCA---GCTGC---TGCTGCAGCGAAAGCA---GC---------GAGTA------CCTCGCCC---------------AGCAACAAC---AATAACAACAA---CAAC-------------------A---ACAACAGCAG------CTGCCACAAT------GGGAACAAGCACA--------------------------AGACGTCA---AA------GGGCAACAACAACA--ACA	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
ACAACAACAGCAGCAGCAGCA-------..............................................................................................................................................................................................................................................................................................................................	21	20	0.25	5	0	0	4	0	0	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
....CAACAGCAGCAGCAGCA-------GCAGCAGC......................................................................................................................................................................................................................................................................................................................	25	20	0.20	4	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.............................................................................................................................................................................................................AA---CAAC-------------------A---ACAACAGCAG------CT...........................................................................................	19	20	0.10	2	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..AACAACAGCAGCAGCAGCA-------GCAGCA........................................................................................................................................................................................................................................................................................................................	25	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
............................................................................................................................................................................................................CAA---CAAC-------------------A---ACAACAGCAG------CTGC.........................................................................................	22	16	0.06	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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---CAAC-------------------A---ACAACAGCAG------CT...........................................................................................	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	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
..................................................................................................................................................................................................................CAAC-------------------A---ACAACAGCAG------CTGC.........................................................................................	19	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
..............................................................................................................................................................................................AAC---AATAACAACAA---CAAC-------------------A---ACAA.........................................................................................................	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
........................................................................................................................................................................C---------------AGCAACAAC---AATAACAACAA---C.......................................................................................................................................	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	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
..AACAACAGCAGCAGCAGCA-------GCAGCAGC......................................................................................................................................................................................................................................................................................................................	27	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	0	0	0	1	0	0	0
..........................................................................................................................................................................................................AACAA---CAAC-------------------A---ACAACAGCAG------.............................................................................................	20	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
....................................................................................................................................................................................................AATAACAACAA---CAAC-------------------A---ACAACAGCA....................................................................................................	25	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
......ACAGCAGCAGCAGCA-------GCAGC.........................................................................................................................................................................................................................................................................................................................	20	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

droMoj3

GCAGCAACAGCAACAGCAGCA-------GCAGCAGCAG-CAGCAG---------GACGAGCAG---CAAC-----------------------AACAGCAG---CAGCA---ACAGC---AGCAGCAACAACAGCA---GC---------AACA-------------------------ACAACAGCAGCAACAGCAACAGCAGCAG---CAAC-------------------A---ACAACAGCAA------CAGCAGCAGC------AGCAACAACAACAGC--------------------------------AGCAG------CAGCAGCAACAACA--ACA	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
................................CAGCAG-CAGCAG---------GACGAGCAG---CAAC-----------------------AAC..........................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	1	0
.......................................CAGCAG---------GACGAGCAG---CAAC-----------------------AACAGC.......................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	1	0
.............CAGCAGCA-------GCAGCAGCAG-CAG................................................................................................................................................................................................................................................................................................................	21	20	0.15	3	3	0	0	0	0	0
................................................................................................................ACAGC---AGCAGCAACAACAGC...................................................................................................................................................................................................................	20	20	0.10	2	0	0	0	0	2	0
.............................................................................................AACAGCAG---CAGCA---ACAGC---A.................................................................................................................................................................................................................................	19	20	0.10	2	2	0	0	0	0	0
.....AACAGCAACAGCAGCA-------GCAGCA........................................................................................................................................................................................................................................................................................................................	22	20	0.10	2	2	0	0	0	0	0
................................................................................................................................CAACAGCA---GC---------AACA-------------------------ACAACAGCAGCAACA........................................................................................................................................................	29	20	0.05	1	0	0	0	0	1	0
.............................................................................................................................................................................................................................................................................AGCAACAACAACAGC--------------------------------AGCAG------CAGCAGC............	27	20	0.05	1	0	0	0	0	1	0
......................................................................................................................................CA---GC---------AACA-------------------------ACAACAGCAGCAACAG.......................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
...................................................................AAC-----------------------AACAGCAG---CAGCA---ACAGC---AGCAGC............................................................................................................................................................................................................................	27	20	0.05	1	0	0	0	0	1	0
........................................................................................................CAGCA---ACAGC---AGCAGCAACA........................................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0
......................................................................................................................................................................................ACAGCAGCAACAGCAACAGCAGCAG---CA......................................................................................................................................	27	20	0.05	1	1	0	0	0	0	0
.................................................................................................................................................................................................AGCAACAGCAGCAG---CAAC-------------------A---ACA..........................................................................................................	22	20	0.05	1	0	0	0	0	1	0
...........................................................GCAG---CAAC-----------------------AACAGCAG---CAGC..............................................................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0
...........................................................................................................................................................................................................GCAG---CAAC-------------------A---ACAACAGCAA------CAGC.........................................................................................	23	20	0.05	1	1	0	0	0	0	0
.........................................................................................................AGCA---ACAGC---AGCAGCAACA........................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0
......................................................................................................................................................................................................................................................................C------AGCAACAACAACAGC--------------------------------AGCAG------CAG................	24	20	0.05	1	1	0	0	0	0	0
.....................................................................................................................................................................................................................C-------------------A---ACAACAGCAA------CAGCAGCAGC------AGC..........................................................................	25	20	0.05	1	0	0	0	0	1	0
.......................................................................................................................................A---GC---------AACA-------------------------ACAACAGCAGCAACAGC......................................................................................................................................................	24	20	0.05	1	0	0	0	0	1	0
...........AACAGCAGCA-------GCAGCAGCAG-CAGCA..............................................................................................................................................................................................................................................................................................................	25	20	0.05	1	1	0	0	0	0	0
...............................................................................................................................ACAACAGCA---GC---------AACA-------------------------ACAACAGCAGCAAC.........................................................................................................................................................	29	20	0.05	1	0	0	0	0	1	0
..............................................................................................................................AACAACAGCA---GC---------AACA-------------------------ACA....................................................................................................................................................................	19	20	0.05	1	0	0	0	1	0	0
.........................................................................................................................................................A-------------------------ACAACAGCAGCAACAGCAACAG.................................................................................................................................................	23	20	0.05	1	1	0	0	0	0	0
.......................................................................................................................................................................................................AGCAGCAG---CAAC-------------------A---ACAACAG......................................................................................................	20	20	0.05	1	0	0	0	0	1	0
......................................................................................................................................................................................................................................................................C------AGCAACAACAACAGC--------------------------------AGCAG------CAGC...............	25	20	0.05	1	0	0	0	0	1	0
......................................................................................................................................................................................................................................................A------CAGCAGCAGC------AGCAACAACAACAGC--------------------------------..............................	26	20	0.05	1	0	0	0	0	1	0
...................................................................................................AG---CAGCA---ACAGC---AGCAGCAACAA.......................................................................................................................................................................................................................	23	20	0.05	1	1	0	0	0	0	0
....................................................................AC-----------------------AACAGCAG---CAGCA---ACAGC---AGCAG.............................................................................................................................................................................................................................	25	20	0.05	1	1	0	0	0	0	0
.....................................................................................................................................................................................AACAGCAGCAACAGCAACAGCAGC.............................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
................................................................................................................................................................................................................................................................................AACAACAACAGC--------------------------------AGCAG------CAGCAGCA...........	25	20	0.05	1	0	1	0	0	0	0
................................................................................................................................................................................................................................................ACAGCAA------CAGCAGCAGC------AGCAAC.......................................................................	23	20	0.05	1	0	0	0	0	1	0
....................................................................................................................................................................................................................................................................AGC------AGCAACAACAACAGC--------------------------------AGCAG------CAGCA..............	28	20	0.05	1	1	0	0	0	0	0
...................CA-------GCAGCAGCAG-CAGCAG---------G...................................................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................ACAACAGC--------------------------------AGCAG------CAGCAGCAAC.........	23	20	0.05	1	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................C--------------------------------AGCAG------CAGCAGCAACAACA--ACA	23	20	0.05	1	0	0	0	0	1	0
.............................................................................................................................................................................................CAACAGCAACAGCAGCAG---CAAC-------------------A---.............................................................................................................	23	20	0.05	1	0	0	0	0	1	0
.................................................................................................................................................................................................................................................................................ACAACAACAGC--------------------------------AGCAG------CAGC...............	20	20	0.05	1	0	1	0	0	0	0
............................................................................................................A---ACAGC---AGCAGCAACAACAGCA---GC---------A...................................................................................................................................................................................................	25	20	0.05	1	1	0	0	0	0	0
...................................................................AAC-----------------------AACAGCAG---CAGCA---ACAGC---AGC...............................................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
...................................................................................................................................................................................ACAACAGCAGCAACAGCAACAGCAGC.............................................................................................................................................	26	20	0.05	1	0	0	0	0	1	0
.......................................................................................................................................A---GC---------AACA-------------------------ACAACAGCAGC............................................................................................................................................................	18	20	0.05	1	1	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................AGCAG------CAGCAGCAACAACA--...	19	20	0.05	1	1	0	0	0	0	0
.............................................................................................................................................................................................................................................ACAACAGCAA------CAGCAGCAGC------A............................................................................	21	20	0.05	1	0	0	0	0	1	0
............................................................CAG---CAAC-----------------------AACAGCAG---CAGCA---ACAGC---..................................................................................................................................................................................................................................	25	20	0.05	1	1	0	0	0	0	0
..................................................................CAAC-----------------------AACAGCAG---CAGCA---AC........................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
...................................................................................................................................................................................................................................................................................AACAACAGC--------------------------------AGCAG------CAGCAGCA...........	22	20	0.05	1	1	0	0	0	0	0
..............................................................................................................................................................................................AACAGCAACAGCAGCAG---CAAC-------------------A---ACA..........................................................................................................	25	20	0.05	1	1	0	0	0	0	0
...........................................................................................................................................................................................AGCAACAGCAACAGCAGCAG---CAAC-------------------A---.............................................................................................................	25	20	0.05	1	0	0	0	0	1	0
....CAACAGCAACAGCAGCA-------GCA...........................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0
................................................................................................................................CAACAGCA---GC---------AACA-------------------------ACAACAGC...............................................................................................................................................................	22	20	0.05	1	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................GCAGC------AGCAACAACAACAGC--------------------------------A.............................	21	20	0.05	1	1	0	0	0	0	0
....................................................................................................................................................................................................................AC-------------------A---ACAACAGCAA------CAGCAGCAGC------AGCA.........................................................................	27	20	0.05	1	0	0	0	0	1	0
....CAACAGCAACAGCAGCA-------GCAGCAGCAG-C..................................................................................................................................................................................................................................................................................................................	28	20	0.05	1	1	0	0	0	0	0
.........................................................................................................AGCA---ACAGC---AGCAGCAACAACAGCA---GC---------....................................................................................................................................................................................................	27	20	0.05	1	0	0	0	0	1	0
....................................................................................................................................................................................................................................................................................ACAACAGC--------------------------------AGCAG------CAGCAGCAACAACA--...	27	20	0.05	1	0	0	0	0	1	0

droGri2

ACAACAGCAGCAGCAGCAGCA-------GCAGTTGGCG-GA---------------GTCACCT---CAA--------------------------CATCAG---CAGCA---GCTGC---TGTGGCGGCGACAGCA---GC---------AAGTA------CCTCGCCC---------------AACAACAAC---AACAACAGC----------------------------A---ACAACAGCAG------CTGCCACAA---------TGGCAACAACAAG-------------------C-ACAAGACGTCA---AA------GGGCAATAGTAACA--GCA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droWil2

ACAACAACAGCAACAGCAACA-------ACAACAGCAG-CAGCAACAA------CAACAGCAGCAACAA--------------------------CAACAG---CTGCA---GCAGC---AACAGCAACAACAGCA---GC---------AGCA-------------------------ACAGCAACAGCAACAACAGCAGCAACAA---CAAC----------AGC------A---G------CAGCAACAACAGCAACAGC------AACAACAACAGCAGC--------------------------------AACAA------CAGCAACAGCAACA--ACA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
...................................................................AA--------------------------CAACAG---CTGCA---GCAGC---A.................................................................................................................................................................................................................................	19	4	0.25	1	0	0	0	1	0
.....................................................................................................................................................................................................GCAGCAACAA---CAAC----------AGC------A---.............................................................................................................	18	20	0.15	3	0	0	0	3	0
....................................................................................................................................................................................................................................................................................ACAGCAGC--------------------------------AACAA------CAGCAACAGC.........	23	7	0.14	1	0	0	0	1	0
......................................................................................................................................................................................................................................................................C------AACAACAACAGCAGC--------------------------------AACAA------CA.................	23	20	0.10	2	0	0	0	2	0
......................................................................................................................................................AGCA-------------------------ACAGCAACAGCAACAACAGCAGCA...............................................................................................................................................	28	10	0.10	1	0	1	0	0	0
..............................................................................................................................................................................................................A---CAAC----------AGC------A---G------CAGCAACAAC............................................................................................	20	20	0.10	2	0	0	0	0	2
.....................................................................................................................................................................................................................C----------AGC------A---G------CAGCAACAACAGCA........................................................................................	20	20	0.10	2	0	2	0	0	0
..............................................................................................................................................................................................................................................................AGCAACAGC------AACAACAACAGCAGC--------------------------------A.............................	25	20	0.10	2	0	2	0	0	0
........AGCAACAGCAACA-------ACAACAGCAG-CA.................................................................................................................................................................................................................................................................................................................	25	20	0.10	2	0	2	0	0	0
..........................................CAACAA------CAACAGCAGCAACAA--------------------------CA.........................................................................................................................................................................................................................................................	23	20	0.10	2	0	0	0	2	0
............................ACAACAGCAG-CAGCAACAA------C...................................................................................................................................................................................................................................................................................................	20	20	0.10	2	0	0	0	0	2
...............................................................................................................................................................................................................................................................GCAACAGC------AACAACAACAGC.................................................................	20	20	0.05	1	0	1	0	0	0
...........................................................................................................CA---GCAGC---AACAGCAACAACAGCA---G..............................................................................................................................................................................................................	24	20	0.05	1	0	0	0	1	0
.................................................................................................................................AACAGCA---GC---------AGCA-------------------------ACAGCA.................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1
.......................................................................................................................................................................................CAACAGCAACAACAGCAGCAACA............................................................................................................................................	23	20	0.05	1	0	0	0	1	0
.................................................................................................................CAGC---AACAGCAACAACAGCA---GC---------AGCA-------------------------A......................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0
...........AACAGCAACA-------ACAACAGCAG-CAGCA..............................................................................................................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
....................................................................................................................................................................................................AGCAGCAACAA---CAAC----------AGC------A---G------......................................................................................................	20	20	0.05	1	0	0	0	1	0
........................................................................................................................AACAGCAACAACAGCA---GC---------AGCA-------------------------ACA....................................................................................................................................................................	25	20	0.05	1	0	0	0	1	0
..................................................................................................................AGC---AACAGCAACAACAGCA---G..............................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0
................................................................................................................................................................................................CAACAGCAGCAACAA---CAAC----------AGC------A---G------C.....................................................................................................	25	20	0.05	1	0	0	0	1	0
..................................................................................................................................................................................................ACAGCAGCAACAA---CAAC----------AGC------A---.............................................................................................................	21	20	0.05	1	0	0	0	0	1
.................................................................................................................................................................................................................................................................AACAGC------AACAACAACAGCAGC--------------------------------A.............................	22	20	0.05	1	0	1	0	0	0
..................ACA-------ACAACAGCAG-CAGCAA.............................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	1	0
.............................................................................................................................................................................................CAACAACAGCAGCAACAA---CAAC----------..........................................................................................................................	22	20	0.05	1	0	1	0	0	0
.........GCAACAGCAACA-------ACAACAGC......................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0
.................................................................................................................................................................................................................................................................AACAGC------AACAACAACAGCAGC--------------------------------AACA..........................	25	20	0.05	1	0	0	0	1	0
................................................................................................................................................................................................................................................................................AACAACAGCAGC--------------------------------AACAA------CAGC...............	21	20	0.05	1	0	0	0	1	0
................................................................................................................................................................................................................................................................CAACAGC------AACAACAACAGCA................................................................	20	20	0.05	1	0	0	0	1	0
...................CA-------ACAACAGCAG-CAGCAACAA------CA..................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	1	0
.................AACA-------ACAACAGCAG-CAGCAA.............................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	1
..................ACA-------ACAACAGCAG-CAGCAACA...........................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	1	0
...........AACAGCAACA-------ACAACAGCAG-CA.................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0
.............................................................................................................................................................................................................AA---CAAC----------AGC------A---G------CAGCAACAAC............................................................................................	21	20	0.05	1	0	0	1	0	0
.............................................................................................................................................................................................................AA---CAAC----------AGC------A---G------CAGCAACAA.............................................................................................	20	20	0.05	1	0	0	0	1	0
...................................................................................................................................................................................................................AAC----------AGC------A---G------CAGCAACAACAGCAACA.....................................................................................	25	20	0.05	1	0	0	1	0	0

dp5

GCAACATCATCATCAGCAGCA-------GCATCAGGCG-CAGCAG---------CAGGCACAG---CAAC-----------------------AGCAGCAG---CAACA---GCAGG---CTCAGCAGCAG---GCTCAGC---------AACA-------------------------------GCAACAAC---AACAGCAGCAA---CAAC-------------------A---GCAACAACAA------CAGCAACAAC------AGCAGCAACAGCAGC--------------------------------AGCAG------CAGCAGCAACAACA--ACA	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
...............................................................................................................................GCAG---GCTCAGC---------AACA-------------------------------GCAACAAC---AAC...................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................AGCAG---GCTCAGC---------AACA-------------------------------GCAAC............................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................GCAG---GCTCAGC---------AACA-------------------------------GCAACA...........................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................CA---GCAGG---CTCAGCAGCAG---GCTCAGC---------AAC.................................................................................................................................................................................................	28	1	1.00	1	0	0	1	0	0	0	0	0	0	0
...............................................................................................................................GCAG---GCTCAGC---------AACA-------------------------------GCAACAAC---......................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................AG---GCTCAGC---------AACA-------------------------------GCAACAA..........................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................AG---CAACA---GCAGG---CTCAGCAG..........................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................GCAG---GCTCAGC---------AACA-------------------------------GCAACAAC---A.....................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................CAACA---GCAGG---CTCAGCAGCA........................................................................................................................................................................................................................	20	2	0.50	1	0	0	0	0	1	0	0	0	0	0
........................................................................................................CAACA---GCAGG---CTCAGCAGCAG---G...................................................................................................................................................................................................................	22	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.............................................................AG---CAAC-----------------------AGCAGCAG---CAACA---GCAGG---C.................................................................................................................................................................................................................................	25	2	0.50	1	0	0	1	0	0	0	0	0	0	0
.............CAGCAGCA-------GCATCAGGCG-CAG................................................................................................................................................................................................................................................................................................................	21	2	0.50	1	0	1	0	0	0	0	0	0	0	0
......................................................CAGGCACAG---CAAC-----------------------AGCAGCAG---..................................................................................................................................................................................................................................................	21	2	0.50	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................CAA------CAGCAACAAC------AGCAGCAACAGCAG...............................................................	27	6	0.50	3	0	0	0	0	0	0	0	3	0	0
............................................................................................................................................................................................................CAA---CAAC-------------------A---GCAACAACAA------CA...........................................................................................	20	20	0.35	7	0	7	0	0	0	0	0	0	0	0
..........................................................CACAG---CAAC-----------------------AGCAGCAG---CAACA---..........................................................................................................................................................................................................................................	22	9	0.11	1	0	0	1	0	0	0	0	0	0	0
............................................................................................................................................C---------AACA-------------------------------GCAACAAC---AACAGCAGCAA---C.......................................................................................................................................	25	10	0.10	1	0	0	1	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................AACAA------CAGCAACAAC------AGCAGCAAC....................................................................	24	11	0.09	1	0	0	1	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................ACAAC------AGCAGCAACAGCAGC--------------------------------AGCAG------...................	25	11	0.09	1	0	0	0	0	1	0	0	0	0	0
.............................................................................................................................................................................................................................................GCAACAACAA------CAGCAACAAC------AGCAGC.......................................................................	26	13	0.08	1	0	0	1	0	0	0	0	0	0	0
.........................................................................................................................................................................................GCAACAAC---AACAGCAGCAA---CAAC-------------------.................................................................................................................	23	16	0.06	1	0	0	1	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................AACAACAA------CAGCAACAAC------AGCAGCA......................................................................	25	16	0.06	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................GCAGCAACAGCAGC--------------------------------AGCAG------CAGCAGCAAC.........	29	19	0.05	1	0	0	1	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................CAA------CAGCAACAAC------AGCAGC.......................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................CAAC---AACAGCAGCAA---CAAC-------------------A---.............................................................................................................	20	20	0.05	1	0	0	0	0	0	1	0	0	0	0
.............................................................AG---CAAC-----------------------AGCAGCAG---CAACA---GCA.......................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	1
.....................................................................................................................................................................................................................................................................AC------AGCAGCAACAGCAGC--------------------------------A.............................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................AAC---AACAGCAGCAA---CAAC-------------------A---GC...........................................................................................................	21	20	0.05	1	0	0	0	0	1	0	0	0	0	0
.............................................................................................................................................................................................CAAC---AACAGCAGCAA---CAAC-------------------A---GCA..........................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................AACAAC------AGCAGCAACAGCAGC--------------------------------A.............................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................................ACAAC---AACAGCAGCAA---CAAC-------------------A---.............................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................CA-------------------------------GCAACAAC---AACAGCAGCAA---CAAA-------------------.................................................................................................................	25	20	0.05	1	0	0	0	0	0	0	1	0	0	0
.................................................................................................................................................................................................................................................CAACAA------CAGCAACAAC------AGCAGC.......................................................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0
..............................................................G---CAAC-----------------------AGCAGCAG---CAACA---GCA.......................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0

droPer2

ACAACATCAGCTGCAGCAGCA-------GCAACAACAG-CAGCAACATCAACTGCAGCAGCAG---CATCA-----------------G------CAGCAGCAACAGCA---GCTGC---AGCAGAAGCA---------GC---------AACA-------------------------------GCAACAAC---AGCAGCAGCAACATAAAC----------ATCAACAGCA---ACAACAGCAG------CAGCAACAGC------AGCAGCAGCAACAAC--------------------------------AGCAG------CAGCAACAACAGCA--GCA	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
...............................................................................................................................................................................................................................................AACAGCAG------CAGCAACAGC------AGCA.........................................................................	22	20	0.15	3	0	0	3	0	0	0
...............................................................................................................................................................................................................................................AACAGCAG------CAGCAACAGC------A............................................................................	19	20	0.10	2	0	0	2	0	0	0
.............................................................................................................................................................................................................................................................CAGCAACAGC------AGCAGCAGC....................................................................	19	20	0.05	1	0	0	0	0	1	0
......................................................................................................................................................................................................................................AGCA---ACAACAGCAG------CAGC.........................................................................................	18	20	0.05	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................................................................GC------AGCAGCAGCAACAAC--------------------------------AGCAG------CA.................	24	20	0.05	1	0	0	1	0	0	0
.........................................................................................................................................................................................GCAACAAC---AGCAGCAGCAACA.........................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
.............................................................................................................................................................................................................................................................CAGCAACAGC------AGCAGCAGCAACA................................................................	23	20	0.05	1	0	1	0	0	0	0
...........................................................................................................................................GC---------AACA-------------------------------GCAACAAC---AGCAGCAGC.............................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0
..............................................................................................................................................................................................................................................CAACAGCAG------CAGCAACAGC------AGCA.........................................................................	23	20	0.05	1	0	0	1	0	0	0
............GCAGCAGCA-------GCAACAACAG-CAGCA..............................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	1	0	0	0
......................................................................................................................................................................................................................................................................................AACAAC--------------------------------AGCAG------CAGCAACAA..........	20	20	0.05	1	0	0	1	0	0	0
.......................................................................................................................................................................................................................................GCA---ACAACAGCAG------CAGCAACA.....................................................................................	21	20	0.05	1	0	0	1	0	0	0

droAna3

GCAGAAACAGCAACAGCAGCA-------GCAGCAGCAA-CTGTTG---------CAGAAACAG---CAAC-----------------------AACAGCAG---CAGCA---ACTGC---AGCAGCAGCAG---AA---AC---------AGCA-------------------------GCAACAGCAACAGC---AGCAACAGCAA---CAGC-------------------A---GCAACAACCA------CAACAACAAC------AAGTACTACTAAAGC--------------------------------CACAA------CAGCAACCTCAACA--GCA	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
...................................................................................................................................................................................................................AGC-------------------A---GCAACAACCA------CAACAAC......................................................................................	21	2	0.50	1	0	1	0	0	0	0
..............................................................................................ACAGCAG---CAGCA---ACTGC---AGCAGCA...........................................................................................................................................................................................................................	24	2	0.50	1	0	0	0	1	0	0
.....AACAGCAACAGCAGCA-------GCAGCAGCA.....................................................................................................................................................................................................................................................................................................................	25	20	0.20	4	0	1	0	0	0	3
...................................................................AAC-----------------------AACAGCAG---CAGCA---ACT.......................................................................................................................................................................................................................................	19	7	0.14	1	0	1	0	0	0	0
......................................................................................................................................AA---AC---------AGCA-------------------------GCAACAGCAAC............................................................................................................................................................	19	7	0.14	1	0	1	0	0	0	0
..........CAACAGCAGCA-------GCAGCAGCA.....................................................................................................................................................................................................................................................................................................................	20	20	0.10	2	0	0	2	0	0	0
.........................................................................................................................................................A-------------------------GCAACAGCAACAGC---AGCAAC................................................................................................................................................	21	20	0.10	2	0	2	0	0	0	0
....................................................................................................................................................................................................AGCAACAGCAA---CAGC-------------------A---GCAAC........................................................................................................	21	20	0.10	2	0	2	0	0	0	0
.............................................................AG---CAAC-----------------------AACAGCAG---CAGCA---AC........................................................................................................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	1
......ACAGCAACAGCAGCA-------GCAGC.........................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
.........................................................................................................................................................A-------------------------GCAACAGCAACAGC---AGC...................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0
...........................................................ACAG---CAAC-----------------------AACAGCAG---CAGC..............................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
.....AACAGCAACAGCAGCA-------GCAGCAGC......................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0
.....AACAGCAACAGCAGCA-------GCAGCA........................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0
..............................................................G---CAAC-----------------------AACAGCAG---CAGCA---AC........................................................................................................................................................................................................................................	20	20	0.05	1	0	0	1	0	0	0
............................................................................................................................................................................................ACAGC---AGCAACAGCAA---CAGC-------------------.................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
.............................................................AG---CAAC-----------------------AACAGCAG---CAGCA---..........................................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0
.......CAGCAACAGCAGCA-------GCAGCA........................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	1
.......................................................................................................................................................................................................AACAGCAA---CAGC-------------------A---GCAACA.......................................................................................................	19	20	0.05	1	0	0	0	0	0	1
.....AACAGCAACAGCAGCA-------GCAGCAGCAA-C..................................................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	0	0	0	0	1
.............CAGCAGCA-------GCAGCAGCAA-CT.................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0
........................................................................................................................................................................................................ACAGCAA---CAGC-------------------A---GCAACAAC.....................................................................................................	20	20	0.05	1	0	1	0	0	0	0

droBip1

GCAACAACAGCAGCAGCCACC-CAACATGCAT-------CACCAT---CAACAGCAGCAGCAG---CATCA-----------------G------CAACAT------------------------CAACAACATCA---GC---------AG-------------------------------CAGCAGCAAC---ATCAACAACAA---CAAC-------------------A---TCAGCAGCAG------CAGCAACACA------TGCAACAGCAACAAC--------------------------------AACAG------CAACAACAACAACA--ACA	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CCAGCAGCAGCAGCACCAGCA-------GCAGCAGCTC-CAGCAG---------CAGCAGCACCAGCAG--------------------------CAGCAC---CACCA---GCAGC---AGCAGCACCAG---CA---GC------AGCAGCA-------------------------CCAGCAGCAG---------CAGCACCAG---CAGCAGCAGCACACAGCAGCAGCA---GCAACAGCAG------CAGCACCAA---------CAGCAGCAAAAGC---------------------ACCAGC-----CGCAGCATTCACAACAACAACAACA--GCA	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GCAACAACAGCAGCAGCAACA-------GCAACAGCAG-CAACTA---------CAACAACAA---CAG-----------------------------------CAGCAACAGCAGCAGCAACAACAGCA---------AC---------AGCA-------------------------GCAACTACAACAACAACAGCAGCAGCAG---CAGC----------AAC------T---A------CAACAA---CAACAGCACC------AAATACAACAACAGC--------------------------------AGCAACAGACACTGCAGCAACAGCA--ACA	Size	Hit Count	Total Norm	Total
No Reads

droEle1

ACAGCAGCAGCAGCAACAGCA-------GCAACAGATG-CAAATG---------GCTCAGCAGCAACAG--------------------------------------------CAGGCGATTCAGCAGCAT---CATCAGCACCTCC---AACA-------GCAACA------------CCAACAGCAGCAAC---AGCAACAACAT----------------------------------------------CAACAGCAGC------AGCAGCAGCAACAAC--------------------------------AACAA------CAGCAACAACAACA--ACA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

GGCGCAACATCAGCAACAGGCGCA----ACAACAGCTG-CTAATG---------CAGCAACAACAACGA--------------------------CAGCAG---CAGCA---GCAAC---AACAACAACAACAACA---AC---------AACA-------------------------ACAACAACAACAAC---AACAACAACAA---CAAC-------------------A---ACAACAACAACAGCATCAACAGCATC------AACAGCATCAACAGC--------------------------------ATCAA------CAGCATCAACAACA--ACA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

ACAACAGCAGCAGCAGCAACA-------GCAGCAACTTGCGGCCG----------AGCAGCAG---CAGCGAG----------------------CGGCGG---CAGCG---GCGGC---CGTAGTGGCAGCGGCG---GT---------CAGTG------CGCTGCACAACGGCAACA--AGCAGCAGCA-C---TACAACAACAA---CAAC-------------------A---ACAATAACAA------TGGCAACAG------------------CAAG---------TCGAG-----GG---------------A------TCGCGACG--ATCA--CCT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

ACAGCAATATCAGCAGCAGTT-------ACAGCAGCAA-CAACTG---------CAGCAGCAA---CAATT-----------------GCAACAGCAA------CAGCT---ACAGC---AGCAGCAACTGCAGCA---GC------------A-------------------------------ACAACTAC---AGCAGCAACAA---CTAC----------AGCAGC---AACAATTACAG---------CAGCAGCAAC------TACAGCAGCAACAGT--------------------------------TGCAA------CAGCAACAACAGCA--ACA	Size	Hit Count	Total Norm	Total
No Reads

droEug1

ACAGCAACAGCTGCAGCGGCG-------GCAGCAGCAG-CTGTTG---------TTGCCCTAC---CGAC--------------------------GGCTG---CAGCA---ACAGC---CGCAGCACC-ACAGCA---AC---------ATGCA--GGCT--TCGG---------------ACAGCAGCAGC---AGCAACAGCAA---CATC-------------------A---CCAGCAACAG------CAGCAACATCTCATCCAGCAAAGCCAACATC--------------------------------AACAG------CAGCAACACCAGCA--TCA	Size	Hit Count	Total Norm	Total
No Reads

dm3

GCAACATCAGCAGCAGCAGCA-------ACATCAGTTG-TTGCAG------------CACCAG---CAACAAC--------------------A--GACAG---CAACA---ACGAC---CACAACGAA-GCGGCG---GA---------ATGCTGAGTCC--TCTGCC------------AGCAGCAATAAC---AACAACAACAA---CAAT-------------------A---CCAGCACCAC------CAACAATAAT------AATACTAACAATAAC--------------------------------AACAA------CAGCACCACGAACA--ACA	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
....................................................................................................................................GGCG---GA---------ATGCTGAGTCC--TCTGCC------------AG...................................................................................................................................................................	25	1	4.00	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......TCAGCAGCAGCAGCA-------ACATCAGTT.....................................................................................................................................................................................................................................................................................................................	24	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................GGCG---GA---------ATGCTGAGTCC--TCTGCC------------.....................................................................................................................................................................	23	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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droSim2

ACAGCAACAACAACAGCAACA-------GCAGCAGCAA-GCAATG-----------------A---CAGTGAGCGGTGCGACGGGCGGA------CAAGTG---CAACA---ACAGG---TGCAGCAAGTG----------------------------------------------------CAGCAG---------CAGGTCCAG---CAGCAACAGCAG-CAGCAGCAACA---ACAACAACAG------CTGCAACAT---------CACCA------AA---------TCATA-----GA-------CTCG---TC------GGGCAACA-TTACA--ACA	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
...............................................................................................................................................................................................................................................................................CACCA------AA---------TCATA-----GA-------CTCG---TC------GGGC...............	24	1	4.00	4	0	0	0	0	0	0	0	0	0	0	0	0	2	2	0	0	0
.................................................................................................................................................................................................................................................................AACAT---------CACCA------AA---------TCATA-----GA-------CTCG---TC------GGGC...............	29	1	2.00	2	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CACCA------AA---------TCATA-----GA-------CTCG---TC------GGGCAA.............	26	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0
................................................................................................................................................................................................................................................................................ACCA------AA---------TCATA-----GA-------CTCG---TC------GGGC...............	23	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................ACCA------AA---------TCATA-----GA-------CTCG---TC------GGGCAACA-T.........	28	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
.....................................................................................................................................................................................................................................................................T---------CACCA------AA---------TCATA-----GA-------CTCG---TC------GGGC...............	25	1	1.00	1	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CACCA------AA---------TCATA-----GA-------CTCG---TC------GGGA...............	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
..........................................................................................................................................................................................................................................................................................AA---------TCATA-----GA-------CTCG---TC------GGGCAAC............	22	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................CAT---------CACCA------AA---------TCATA-----GA-------CTCG---TC------GGGC...............	27	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CACCA------AA---------TCATA-----GA-------CTCG---TC------GGGCAAC............	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................................................................................................................................................................................................A---------TCATA-----GA-------CTCG---TC------GGGCAACA-TT........	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
...................................................................................................TG---CAACA---ACAGG---TGCAGCAAGTG----------------------------------------------------CAGC...............................................................................................................................................................	27	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CACCA------AA---------TCATA-----GA-------CTCG---TC------GGG................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
ACAGCAACAACAACAGCAACA-------..............................................................................................................................................................................................................................................................................................................................	21	9	0.67	6	0	0	0	0	0	6	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................GCAACA---ACAACAACAG------CTG..........................................................................................	19	4	0.25	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................CAACAGCAG-CAGCAGCAACA---ACAACAAC.....................................................................................................	28	10	0.10	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0

droSec2

-CAGCAGCTGCAACAGCAACAGCA----GCAGCAGGTG-CA---------------ACAGCAACAACAT--------------------------CAGCAC---CAGCA---CCAGG---TGCAACAGCAACAGCA---GC---------ATCA-------------------------GCAGCAGCAGCAGC---AGCAACAGCAA---CAAC-------------------A---ACAACAACAG------CAACAACAAC------AACAACAACAACAAC--------------------------------AACAG------GTGCAGCACCAACA--GCA	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
................................................................................................................................CAACAGCA---GC---------ATCA-------------------------GCAGCAGCAGC............................................................................................................................................................	25	4	0.25	1	1	0	0	0
...............................................................................................................................................................................................................................................AACAACAG------CAACAACAAC------AACAACA......................................................................	25	6	0.17	1	1	0	0	0
..............................................................................................................................AGCAACAGCA---GC---------ATCA-------------------------GCA....................................................................................................................................................................	19	7	0.14	1	0	0	1	0
.....................................................................................................................................GCA---GC---------ATCA-------------------------GCAGCAGCAGCAGC---......................................................................................................................................................	23	10	0.10	1	0	0	1	0
.................................................................................................................................AACAGCA---GC---------ATCA-------------------------GCAGCA.................................................................................................................................................................	19	14	0.07	1	0	0	0	1
......................................................................................................................................................ATCA-------------------------GCAGCAGCAGCAGC---AGCA..................................................................................................................................................	22	20	0.05	1	0	0	0	1
............................................................................................................................................C---------ATCA-------------------------GCAGCAGCAGCAGC---A.....................................................................................................................................................	20	20	0.05	1	0	0	0	1
........................................................................................................................................................................................AGCAGCAGC---AGCAACAGCA............................................................................................................................................	19	20	0.05	1	0	0	0	1
.........................................................................................................................................................................................GCAGCAGC---AGCAACAGCAA---CA......................................................................................................................................	21	20	0.05	1	0	0	1	0

droYak3

-CAGCAGCAGCAGCAGCACCA-------GCAGCAGCTG-CAGTTG---------CAACAGCAG---CAGC-----------------------ATCAGCAC---CAGCA---GCAGC---AGCAGCAGCAG---CAGCAGC---------AGTT----------------------------GCAGCTGCAAC---ACCAACAGCAC---C----------------------AGCAGCAGCAA---------CAGCAGCAAC------AACATCATCAGCATC--------------------------------AGCAT------CAGCAGCAGCAGCA--GCA	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
.............................................................AG---CAGC-----------------------ATCAGCAC---CAGCA---GC........................................................................................................................................................................................................................................	21	5	0.20	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................GCA---GCAGC---AGCAGCAGCAG---C...................................................................................................................................................................................................................	20	20	0.15	3	0	3	0	0	0	0	0	0	0	0	0
............................................G---------CAACAGCAG---CAGC-----------------------ATCAGCA......................................................................................................................................................................................................................................................	21	20	0.10	2	0	1	0	0	0	0	1	0	0	0	0
....................................................................................................................C---AGCAGCAGCAG---CAGCAGC---------AG..................................................................................................................................................................................................	21	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
......................................................CAACAGCAG---CAGC-----------------------ATCAGC.......................................................................................................................................................................................................................................................	19	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
......................................................CAACAGCAG---CAGC-----------------------ATCAGCA......................................................................................................................................................................................................................................................	20	20	0.10	2	0	0	0	1	0	0	1	0	0	0	0
............................................................................................................................................................................................................CAC---C----------------------AGCAGCAGCAA---------CAGC.........................................................................................	19	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
............................................................................................................A---GCAGC---AGCAGCAGCAG---CAGCAGC---------AGT.................................................................................................................................................................................................	27	17	0.06	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................CAGCAC---CAGCA---GCAGC---AGC...............................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................AGCAGCAGCAA---------CAGCAGCA.....................................................................................	19	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0
.........................................................................................................................GCAGCAGCAG---CAGCAGC---------AGT.................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
..............................................................................................................................................................................................................C---C----------------------AGCAGCAGCAA---------CAGCA........................................................................................	18	20	0.05	1	0	0	0	0	0	1	0	0	0	0	0
..........................................................................................................................................................................................................................................GCAGCAGCAA---------CAGCAGCAAC------.............................................................................	20	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
............................................G---------CAACAGCAG---CAGC-----------------------ATCAGC.......................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
............................................G---------CAACAGCAG---CAGC-----------------------ATCAGG.......................................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0

droEre2

GCAGCAGCAGCAGCAGCAGCG--------CAGCAGG-G-CGGCAG---------CAACAG------CCTCA-----------------G------CGGCAG---CAGCA---ACTCC---TGCCACACCAACAGCA---GC---------GGC-------------------------------------------AACAATAATAA---TAAT-------------------A---ACAACAACAA------TAACAACAAC------AACTCCAGCAGCAACAACAACAACACTAATAGTGGG--AAAACCTCA---GC------GGCCAGCAATGGCGGCACA	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
......................................................................................................................................................................................................................................................................................................CTAATAGTGGG--AAAACCTCA---GC------...................	22	1	1.00	1	0	0	0	0	0	1	0
............GCAGCAGCG--------CAGCAGG-G-CGG................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................TAGTGGG--AAAACCTCA---GC------GGCCAGCAAT.........	28	1	1.00	1	1	0	0	0	0	0	0
..............AGCAGCG--------CAGCAGG-G-CGGC...............................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	1	0	0
...........................................................................................................................................................................................................................................................................................................AGTGGG--AAAACCTCA---GC------GGCCAGCAA..........	26	1	1.00	1	1	0	0	0	0	0	0
............GCAGCAGCG--------CAGCAGG-G-CGGCA..............................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................CAACAACAACACTAATAGT............................................	19	1	1.00	1	0	0	0	0	0	1	0
................................CAGG-G-CGGCAG---------CAACAG------CCTCA-----------------G------CG.........................................................................................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................CTAATAGTGGG--AAAACCTCA---GC------G..................	23	1	1.00	1	0	0	1	0	0	0	0
..AGCAGCAGCAGCAGCAGCG--------.............................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1	0

-23.2	-22.8	-22.7	-22.4

dvi_5825

scaffold_12875:9324203-9324286 +

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