dmo_1068

Name	Class	Family	Strand
TART_DV	LINE	Jockey	+

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## AGCAACATCCCCTATAACACCTACAACAACATCTATAGAAACTGCAACAGCAACAACAACAACGACAGCAACAACAGCAACTGCCCCTATAACACCTACAACAACATCAACAACAACAGCAGCAATCTCACCTACAACAACAACACCTTCACCTACAACATCTTCACCTACAACACCTACAACAACAACACCTGTGGACAGTCCCGCTCAGCAGCTGAACAACAGCGTCGACAGCGGCATCGCCGTTCTCG ***********************************************************************************************...................................................................................*********************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	V056 head	M060 embryo
...............................................................................................................................................................ATCTTCACCTACAACACCTAC.......................................................................	21	0	1	1.00	1	1	0	0
........................................................................................................................................................................................................................GAACAACAGCGTCGACAGC................	19	0	1	1.00	1	1	0	0
.....................................................................................................................................................................................................................................GACCCCGGCATCCCCGTTC...	19	3	6	0.17	1	0	1	0
............................................................................................................................................................................................CACTTTTGGACGGTCCCGC............................................	19	3	10	0.10	1	1	0	0
.................................................................................................ACAACAACATCAACAACAACAGC...................................................................................................................................	23	0	16	0.06	1	0	0	1
.........................................................................ACAGGGACTGCCCCTACAA...............................................................................................................................................................	19	3	17	0.06	1	0	1	0
........................................................................................................................................................................................................................GAACACCAGCGGCGACGGCGGC.............	22	3	17	0.06	1	0	1	0
...................................................................................................AACAACATCAACAACAAC......................................................................................................................................	18	0	20	0.05	1	0	0	1

TCGTTGTAGGGGATATTGTGGATGTTGTTGTAGATATCTTTGACGTTGTCGTTGTTGTTGTTGCTGTCGTTGTTGTCGTTGACGGGGATATTGTGGATGTTGTTGTAGTTGTTGTTGTCGTCGTTAGAGTGGATGTTGTTGTTGTGGAAGTGGATGTTGTAGAAGTGGATGTTGTGGATGTTGTTGTTGTGGACACCTGTCAGGGCGAGTCGTCGACTTGTTGTCGCAGCTGTCGCCGTAGCGGCAAGAGC *********************************************************************...................................................................................***********************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V110 male body	V049 head	V056 head
...............................................................................................................................................................TAGAAATGGATTTTGTGGAT........................................................................	20	2	2	1.00	2	2	0	0
..........................TTGGTAGATATCTGTGACGTT............................................................................................................................................................................................................	21	3	2	0.50	1	0	1	0
................................................................................................................................................................AGAAATGGATTTTGTGGATT.......................................................................	20	3	13	0.15	2	2	0	0
.CGTTGTAGGGGATGTTATCG......................................................................................................................................................................................................................................	20	3	15	0.07	1	1	0	0
....................................................................................................................................ATGATTTTGTTGTGGGAGT....................................................................................................	19	3	20	0.05	1	0	0	1

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6496:10042327-10042577 +	dmo_1068	AGCAACATCCCCTATAACA-CCTACAACAACATCTATAGAAACTG------------CAACAGCAACAACAACAACGA---CAGCAACAACAGCA---------ACTG------------------CCCCTA-------TAACACCTACAACAACATCAACAACAACAGCAGCA------------AT---CTCACCTACAAC---AACAAC------------------------A---CCTTCACCTACAACATCTT---------CACCTACAAC----------ACCTACAA------------------------------------CAACAAC------ACCTGTGGAC--AGT-CC---------------------CGCTCAGCAGCTG-AA-------------------------CAACAGCGTCG--ACAGCGGCATCGCCGTTCTCG---------------------------
droVir3	scaffold_13042:4678627-4678840 -		AGCAACAACAACAACAGCA-ACAACAACAACAACAACAGCAACAG------------CAACAACAACAACAGCAACAA---CAACAACAGCAACA---------ACAA------------------CAACAG-------CAACAACAACAACAGCAACAACAACAACAGCAACA------------AC---AACAACAGCAAC---AACAAC------------------------A---ACAGCAACAACAACAACAG---------CAACAACAAC----------AACAACAA------------------------------------CAACAAC---AG-----------------------------------------------------CAA---CTACAA------------TAAC-----------AA-C------------AGCAGCA---------------------------
droGri2	scaffold_15203:1310312-1310543 -		AGCAACAACAACATCAACA-ACAACAGCAACAACAACAGCAACAA------------CAACAGCAACAACAACAGCAA---CAACAACAGCAACA---------ACAA------------------CAGCAA-------CAACACCAACAATATCAACATCAACAACAACAGCA------CAA---ACAACAG------CAAC---AACAAC------------------------T---GCAACAACAAGAGCAGCAG---------CAAGAGC-------------AA---------CAACAAC---ATCAACAACAACAGCAA------------------------------------------------------CAACAACA--G---CAACAA---CAACTG------------CAAC-----------AA-C------------AAGAGCA---------------------------
droWil2	scf2_1100000004515:3347737-3347980 +		AACAACAACAACAACAACA-ACAACAACAACAACAACAACAACAA------------CAACAACAACAACAACAACAA---CAACAACAACAACA---------ACAA------------------CAACAA-------CAACAACAACAACAACAACAACAACAACAACAACA------------AC---AACAACAACAAC---AACAAC------------------------A---ACAACAACAACAACAACAA---------CAACAACAAC----------AACAACAA------------------------------------CAACAAC---AACAACAAC--------AACA--ACA--------ACAACA-----------------A-------------------------CAACAACAACA--ACAACAGCAACAACAACAACA---------------------------
dp5	XR_group6:8816026-8816269 -		AGCACCAAAAGCAGCAACA-CCAACAATAACAGCACCAAAAACAC------CAA--AAAACAGCAACAACAACAGGAACACCAACAACAAGACCA---------ACAC------------CAACAACA---AC-ACCTACAACAACACCTAAAACAACAAC---------ACCA---ACATCA---ACACCAACAA---CAGC---ACCAGC---------------------AGCA------CCAA-------------------------------AAACAACACCAACAACAGCAACAAAAGCAACAACAACAGGAACACC--------------------------------------------------------------------------AA-------------------------CAACAACAACA--ACAACAAGAACACCAA-CACC---------------------------
droPer2	scaffold_77:81182-81437 +		AGCAACAACAACAACAACA-CCAGCAACACCAACAACACCAACAT------------CAGCTTCAACAACAGCATCAA---CAACACCAACAGCA---------ACAG------------------CAGCAG-------CAACACCAACAACACCAACAGCAGCAGCAACAGCA------------AC---ACCACCAGCACC---AGCAAC------------------------A---GCTTCATCATCATCATCAG---------CAGCAGCAAC----------AGCAGCAG------------------------------------CAACAAC------GTG---TTGCAAGCA-GTAGC-------------------------------CTG---CAACAC------------CAGC-----------AA-C------------AGCAACATGATAATGGACCAACGTCCCATCATTT
droAna3	scaffold_13337:9799892-9800135 -		G-CAGCAGCCGCTGTAGCCTCCAACAACAACAATAATAGTAGCAGCAACAACAACCACAACAGCAACAGCAGCAGCAACAGCAACGGCAG---------------CCAAACACCCACCAGCAACAGCA---ACAGCCTGCAGC---------------------------ATCA------------GT---TCCACCATCACC---TGCACCACCACCACAACCACTCGCACCAGCACCA---CCAT-------------------------------CAGCACCACCACCTGCACCAGC------------------------------------------AC---------GC--GC----------------------ATCCGCA------------------CCACAGCCTGCAGAGCGGC-----------GA-C------------AGCGGCA---------------------------
droBip1	scf7180000396569:1551085-1551337 +		G-CAGCCGCCGCTGTAGCCTCCAACAACAAC---AATAGCAGCAGCAACAACAACCACAACAGCAACAGCAGCAGCAACAGCAACGGCAG---------------CCAAACCCCCACCAGCAACAGCA---ACAGCCTGCAGC---------------------------ATCA------------GT---TCCACCATCACC---TGCACCACCACCACAACCACTCGCACCAGCACCA---CCAT-------------------------------CAGCACCACCACCTGCACCAGC------------------------------------------AC---------GC--GCA-TC---------------------CGCA------------------CCACAGCCTGCAGAG----------CGGCG--ACAGCGGTGGCGGTGCTTCGG---------------------------
droKik1	scf7180000302706:1110211-1110445 +		TACAACAGAACCAACAACA-GAACCAACAACAACAACAGAACCAACAACAACTA---CTACTACAACAGAACCAACAA---CAACTACT---ACT------ACAACAG------------------AACCAA-------CAACAACTACAACTACAGA------------ATCA------------AC---AACAACTACTAC---AACAAC---------------------------------AGAACCAACAAC-------------------------------------------AACTTCTACAACAACAGAACCAACAACAACTTCTACAACAACAG--------------------------------------------------AAGCAACAA---CAA----------------------CGTCC--ACTGAGGAAATTCCACTTCCG---------------------------
droFic1	scf7180000454050:777619-777841 +		AGCAACAACCACTGCAGCA-ACTACAACAGCAGCTACAACAACAG------------CAGCTACAACAACAGCAGCAA---CTACAACAGCGGCA---------ACAA------------------CTACTG-------CGGCAACAACAACTGCTGCAACAACTACAGCTGCA------------AC---AACAACAGCGGC---AACTAC------------------------T---ACCGCTGCAACAACCAC-------------------------------------------AGCAGCAACAACAACAGCAGCAACAA------------------------------------------------------CCACAGCA--G---CAACAA---CAACAG------------CAGC-----------AA-C------------AACAACA---------------------------
droEle1	scf7180000491006:114649-114909 -		AGCAACAACATCAGCAACA-ACAGCAGCAACAACATGAGCAACAA------------CAGCAGCAACAACAGCAGCAA---CAACAGCAGCAACA---------ACAT------------------GAGCAA-------CAACAGCAGCAACAACATGAACAACAACAGCAGCA------------AC---AACATGGGCAAC---AACAGC------------------------A---GCAACAACGGCAGCAACAA---------CATGAGCAAC----------AACGGCAG------------------------------------CAACATCGGCGGAAGGAGG--------AAGC--GTT--------A-----------CAGCAACTG-GA------CATCGGCCAACATATT----------AACC--GCAGCCGCAGCGTCGCTGATG---------------------------
droRho1	scf7180000760202:71876-72099 +		AGCAACAACAGCAGCAGCA-ACAACAACAGCAGCAGCAACAACAG------------CAGCAGCAACAACAACAGCAG---CAGCAACAACAACA---------GCAG------------------CAGCAA-------CAACAGCAGCAGCAACAACAGC---AGC---AACA------------GCAACAACAACAACAGC---AGCAAC------------------------AGCAACAACAACAACAGCAGCTG---------CAACAACAAC----------A---------------------------TCAGGTCTTG------------------------------------------------------GCACAGCA--A---CAAC---------CTCAGCCTG------GAC-----------AA-CAAG-TCATC-------ACC---------------------------
droBia1	scf7180000302113:2271503-2271751 +		AGGAGCAACATCAGCAACA-GCAACAACAACAACTGTAGCAGCAA------------CAGCAGCAGCGATATCAACAA---CTGTAGCAGCAACA---------GCAG------------------CAGCGA-------TATCAACAACTGTAGCAGCAGCAGCAAC---AACC---GAGGGA---GCAACAACAGCAACACT---TGCAGC---------------------GGCAACA---GCAACAACTGCAGC-------------------------------AGCTACAGCAGC------AA------------------------CAACAAC------TGC---TGATAAAGA-CCGGC--------------------TG--G---CAACAGCAA---CAGCGGCCACTTG--CAGC-----------AG-C-----------ATATTTCA---------------------------
droTak1	scf7180000415310:986423-986675 +		AGAACCAACTACTACAACA-ACAACAACGGAACCAACAACTACAA------------CAACAACAACGGAACCAACTA---CTACAACAACCACTACAACAACAACGG------------------AACCCA-------CAACTACTACAACAACCACTAC---------AACT---ACAGAACCCAC---CACTA---CAACAACAACAGA------------------------ACCA---ACTACTACTACAAC-------------------------------AACAGAAC---CAACTACTACTACAACAACAGAACCCA------------------------------------------------------CCACTACA--A---CGACAACAA---CAA----------------------CGAC-AA-CTGAACCACTTCCGTTTCCG---------------------------
droEug1	scf7180000409692:150967-151210 +		CACTGAGGCTCCCACGACA-ACTACAACCACAACAACATGTGCTT------------CAACAACAACAACGACGACTA---CCACAACAACCACA---------ACCA------------------CAACTA-------CAACGACAACCACAACTACAACAACAACCACAACT------------AC---AACGACAACCAC---AACTAC------------------------AACG---ACAACCACTACTACAT---------GTGCTCC-------------AACAACAACAACGACAAC------------------------------------GACAACTAC--------TACC--ACT--------ACCACA-----------------A-------------------------CAACAACAACT--ACAACTTCAACGACAACCACA---------------------------
dm3	chrX:12854252-12854512 +		AGCAACTACTACTGCAGCA-ACAACTACTGCAGCAACAACTACCG------------CAGCAACAACAACTGCAGCAACTACCACGGCAGCAACA---------ACTA------------------CAGCTG-------CAACTACTGCAGCAA---CAACAACTGCAGCAACA------------AC---AACTGCAGCAAC---AACAAC------------------------T---GCAGCAACAACAACTGCAG---------CAACAACAAC----------TGCAGCAA------CAACTACTGCAGCAACAACTACTG---------CTGC---AACAAC---------------------------------TACTGCT--G---CAACAA-------------------------CTACTGCTGCA--ACGACTGCAGCTCCTT-CTGT---------------------------
droSim2	3r:325070-325304 +		AACGCCAACTACAACGACA-CCAACTACAACAACAATAACAACTA------------CTACAACAACACCAACTACAA---CAACACCAACCACA---------ACGA------------------CACCAA-------CTACAACTACAACAACGCCAACTACAACGACATCA------------AC---TACGACAACACC---AACTAC---------------------AACA------ACTACAACTACAACAA---------CACCAACAAC----------AA------------CAACTACAACAACACCAACACCAA------------------------------------------------------CTACAACA--A---CGACAA---CTACAA------------CAAC-----------GA-C------------AGCTACA---------------------------
droSec2	scaffold_6:466753-466981 +		AACAACAACTACTACAACA-ACACCAACCACAACGACACCAACTA------------CACCTACAACAACGCCAACTA---CAACGACACCAACT---------ACGA------------------CAACAC-------CAACTACAACAACAACAACTACAACAACACCAACT------------AC---AACAACACCAAC---TACAAC------------------------AACG---ACAACTACAACAACAC---------CAACTACAAC----------AACAACTA------------------------------------CAACAAC---GCCAAC---------------------------------TACAACG--A---CACCA---------------------------------------ACTACAACAACACCAACTATA---------------------------
droYak3	X:2572531-2572783 +		AGCAGCATCAGCAGCAGCA-TCAGCAGCAGCATCAACAGGAGCAA------------CAGCAACGCCAGCAGGAGATG---CAACGTCAGCAGCA---------ACAG------------------CAAATG-------GAACTAATCAAGCAGCAACGCCAGCAACAGGAGCT------------GC---TACTTCAACAGC---AGCAGC------------------------AGCAACAGCAACAACATCAGCAGCAACAGCAA----------CTGCGCCACCA--TACACCAGC------------------------------------------GG---------AC--ACA-TC----ACACTATCAGCAACAACAGCA--G---ACGACA---CCAAAG------------CTGC-----------TG-C------------ATCCTCG---------------------------
droEre2	scaffold_4929:15079313-15079583 +		TACAACAACCTGTACAACT-ACAACTACGACTACTACAACAACTA------------CAACAACTACAACAACCTGTA---CAACTACAACTACA---------ACAA------------------CCTGTA-------CAACTACAACTACGACTACTACAACAACCTGTACAACTACAACTACGAC---TACTA---CAACAACTACAAC------------------------AACC---TGTACAACTACAAC-------------------------------TACGACTA---CTACAACAACTACAACAACTACAACAA------------------------------------------------------CCTGTACA--A---CTACAACTA---CAACAACCTGTACAC-------CAGAAATT--ACAACTACAACACCGTGTACA---------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

AGCAACATCCCCTATAACA-CCTACAACAACATCTATAGAAACTG------------CAACAGCAACAACAACAACGA---CAGCAACAACAGCA---------ACTG------------------CCCCTA-------TAACACCTACAACAACATCAACAACAACAGCAGCA------------AT---CTCACCTACAAC---AACAAC------------------------A---CCTTCACCTACAACATCTT---------CACCTACAAC----------ACCTACAA------------------------------------CAACAAC------ACCTGTGGAC--AGT-CC---------------------CGCTCAGCAGCTG-AA-------------------------CAACAGCGTCG--ACAGCGGCATCGCCGTTCTCG---------------------------	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
..............................................................................................................................................................................................................................................................ATCTT---------CACCTACAAC----------ACCTAC................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................G-AA-------------------------CAACAGCGTCG--ACAGC...........................................	19	1	1.00	1	1	0	0	0	0	0
...................................................................................................................................................ACAACAACATCAACAACAACAGC............................................................................................................................................................................................................................................................................................................................	23	16	0.06	1	0	0	0	0	1	0
.....................................................................................................................................................AACAACATCAACAACAAC...............................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	1	0

droVir3

AGCAACAACAACAACAGCA-ACAACAACAACAACAACAGCAACAG------------CAACAACAACAACAGCAACAA---CAACAACAGCAACA---------ACAA------------------CAACAG-------CAACAACAACAACAGCAACAACAACAACAGCAACA------------AC---AACAACAGCAAC---AACAAC------------------------A---ACAGCAACAACAACAACAG---------CAACAACAAC----------AACAACAA------------------------------------CAACAAC---AG-----------------------------------------------------CAA---CTACAA------------TAAC-----------AA-C------------AGCAGCA---------------------------	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
.....................................................................................................................................................................................................................................................................................C----------AACAACAA------------------------------------CAACAAC---AG-----------------------------------------------------CA.......................................................................................	20	20	0.15	3	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	0	0	0	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------------------------------------CAACAAC---AG-----------------------------------------------------CAA---CTAC...............................................................................	18	20	0.10	2	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................ACAACAA------------------------------------CAACAAC---AG-----------------------------------------------------CAA---CTAC...............................................................................	23	13	0.08	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
...................................................................................................................................................................................................................................................................................................AACAA------------------------------------CAACAAC---AG-----------------------------------------------------CAA---CTACA..............................................................................	22	15	0.07	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
...................................................................................................................................................................................................................................................................................................AACAA------------------------------------CAACAAC---AG-----------------------------------------------------CAA---CTAC...............................................................................	21	16	0.06	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................AACAACAACAACAACAGCA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................AACAACAACAGCAACA------------AC---AACAA..................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................ACAGCAACA------------AC---AACAACAGC..............................................................................................................................................................................................................................................................................................	20	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
................................................................................................................................................................................................................................................................................................AACAACAA------------------------------------CAACAAC---AG-----------------------------------------------------CAA---CTA................................................................................	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
............................................................................AA---CAACAACAGCAACA---------ACAA------------------CAA.....................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................CAACAGCAACAA---CAACAAC..............................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.............................................................................................................................................................................A------------AC---AACAACAGCAAC---AACAAC------------------------A---A.....................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................AG------------CAACAACAACAACAGCA............................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................................................................ACAGCAACAACAACAACAGC............................................................................................................................................................................................................................................................................................................................	20	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
......................................GCAACAG------------CAACAACAACAACAGC.............................................................................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................ACAGCAACAA---CAACAACAGC...........................................................................................................................................................................................................................................................................................................................................................................................................	20	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
........................................................................................................................................................................................................................................................AACAACAACAG---------CAACAACAAC----------AA....................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................A---------ACAA------------------CAACAG-------CAACAACAACAA...............................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
............................................G------------CAACAACAACAACAGCAAC..........................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......AACAACAACAGCA-ACAACAACAA........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................AACAAC------------------------A---ACAGCAACAACAACAA......................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................AACAACAACAGCAACAACAACAA................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................ACAG-------CAACAACAACAACAGC...........................................................................................................................................................................................................................................................................................................................................	20	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
...............................................................................................................................................................................................................................................................................CAACAAC----------AACAACAA------------------------------------CAACAAC---AG-----------------------------------------------------C........................................................................................	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
................................................................................................................................................................................................................................................ACAGCAACAACAACAACAG---------C.........................................................................................................................................................................................................................	20	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
...................................................................................................................................................................................................ACAGCAAC---AACAAC------------------------A---ACAGC.................................................................................................................................................................................................................................................	20	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
......................................................................................ACAGCAACA---------ACAA------------------CAACAG-------C..........................................................................................................................................................................................................................................................................................................................................................	20	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

droGri2

AGCAACAACAACATCAACA-ACAACAGCAACAACAACAGCAACAA------------CAACAGCAACAACAACAGCAA---CAACAACAGCAACA---------ACAA------------------CAGCAA-------CAACACCAACAATATCAACATCAACAACAACAGCA------CAA---ACAACAG------CAAC---AACAAC------------------------T---GCAACAACAAGAGCAGCAG---------CAAGAGC-------------AA---------CAACAAC---ATCAACAACAACAGCAA------------------------------------------------------CAACAACA--G---CAACAA---CAACTG------------CAAC-----------AA-C------------AAGAGCA---------------------------	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droWil2

AACAACAACAACAACAACA-ACAACAACAACAACAACAACAACAA------------CAACAACAACAACAACAACAA---CAACAACAACAACA---------ACAA------------------CAACAA-------CAACAACAACAACAACAACAACAACAACAACAACA------------AC---AACAACAACAAC---AACAAC------------------------A---ACAACAACAACAACAACAA---------CAACAACAAC----------AACAACAA------------------------------------CAACAAC---AACAACAAC--------AACA--ACA--------ACAACA-----------------A-------------------------CAACAACAACA--ACAACAGCAACAACAACAACA---------------------------	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
...........................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAACA--ACAACAGCAACAACA.................................	24	20	0.10	2	0	2	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................CA-----------------A-------------------------CAACAACAACA--ACAACAGCAACA....................................	26	20	0.05	1	0	0	0	1	0

dp5

AGCACCAAAAGCAGCAACA-CCAACAATAACAGCACCAAAAACAC------CAA--AAAACAGCAACAACAACAGGAACACCAACAACAAGACCA---------ACAC------------CAACAACA---AC-ACCTACAACAACACCTAAAACAACAAC---------ACCA---ACATCA---ACACCAACAA---CAGC---ACCAGC---------------------AGCA------CCAA-------------------------------AAACAACACCAACAACAGCAACAAAAGCAACAACAACAGGAACACC--------------------------------------------------------------------------AA-------------------------CAACAACAACA--ACAACAAGAACACCAA-CACC---------------------------	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
.............................................................................................................................................................................................................................................................................................................................GAACACC--------------------------------------------------------------------------AA-------------------------CAACAACAACA--ACA.............................................	23	3	0.67	2	0	2	0	0	0	0	0	0	0	0
...........................................................................................ACCA---------ACAC------------CAACAACA---AC-ACC.............................................................................................................................................................................................................................................................................................................................................................	21	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..CACCAAAAGCAGCAACA-CCA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................GAACACC--------------------------------------------------------------------------AA-------------------------CAACAACAACA--ACAA............................................	24	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................GAACACC--------------------------------------------------------------------------AA-------------------------CAACAACAAC...................................................	19	5	0.20	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................ACACC--------------------------------------------------------------------------AA-------------------------CAACAACAACA--ACAAC...........................................	23	17	0.06	1	0	0	1	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................CACC--------------------------------------------------------------------------AA-------------------------CAACAACAACA--ACAAC...........................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0

droPer2

AGCAACAACAACAACAACA-CCAGCAACACCAACAACACCAACAT------------CAGCTTCAACAACAGCATCAA---CAACACCAACAGCA---------ACAG------------------CAGCAG-------CAACACCAACAACACCAACAGCAGCAGCAACAGCA------------AC---ACCACCAGCACC---AGCAAC------------------------A---GCTTCATCATCATCATCAG---------CAGCAGCAAC----------AGCAGCAG------------------------------------CAACAAC------GTG---TTGCAAGCA-GTAGC-------------------------------CTG---CAACAC------------CAGC-----------AA-C------------AGCAACATGATAATGGACCAACGTCCCATCATTT	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
.......................................................................................................................................................................AACAGCA------------AC---ACCACCAGCACC---........................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0
.........................................................................ATCAA---CAACACCAACAGCA---------ACAG------------------CAGC....................................................................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0
.................................................................................CAACACCAACAGCA---------ACAG------------------CAGC....................................................................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
.............................................................................A---CAACACCAACAGCA---------ACAG------------------CAGC....................................................................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0

droAna3

G-CAGCAGCCGCTGTAGCCTCCAACAACAACAATAATAGTAGCAGCAACAACAACCACAACAGCAACAGCAGCAGCAACAGCAACGGCAG---------------CCAAACACCCACCAGCAACAGCA---ACAGCCTGCAGC---------------------------ATCA------------GT---TCCACCATCACC---TGCACCACCACCACAACCACTCGCACCAGCACCA---CCAT-------------------------------CAGCACCACCACCTGCACCAGC------------------------------------------AC---------GC--GC----------------------ATCCGCA------------------CCACAGCCTGCAGAGCGGC-----------GA-C------------AGCGGCA---------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.............GTAGCCTCCAACAACAAC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0
.......GCCGCTGTAGCCTCCAACAAC..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0
........................................................ACAACAGCAACAGCAGCAGCAAC.......................................................................................................................................................................................................................................................................................................................................................................................................................	23	10	0.10	1	0	1	0	0	0	0
............................................................CAGCAACAGCAGCAGCAACAGCAAC.................................................................................................................................................................................................................................................................................................................................................................................................................	25	17	0.06	1	1	0	0	0	0	0
.........................................................CAACAGCAACAGCAGCAGCA.........................................................................................................................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	1	0	0	0	0	0
..........................................................AACAGCAACAGCAGCAGCAACAGC....................................................................................................................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0

droBip1

G-CAGCCGCCGCTGTAGCCTCCAACAACAAC---AATAGCAGCAGCAACAACAACCACAACAGCAACAGCAGCAGCAACAGCAACGGCAG---------------CCAAACCCCCACCAGCAACAGCA---ACAGCCTGCAGC---------------------------ATCA------------GT---TCCACCATCACC---TGCACCACCACCACAACCACTCGCACCAGCACCA---CCAT-------------------------------CAGCACCACCACCTGCACCAGC------------------------------------------AC---------GC--GCA-TC---------------------CGCA------------------CCACAGCCTGCAGAG----------CGGCG--ACAGCGGTGGCGGTGCTTCGG---------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TACAACAGAACCAACAACA-GAACCAACAACAACAACAGAACCAACAACAACTA---CTACTACAACAGAACCAACAA---CAACTACT---ACT------ACAACAG------------------AACCAA-------CAACAACTACAACTACAGA------------ATCA------------AC---AACAACTACTAC---AACAAC---------------------------------AGAACCAACAAC-------------------------------------------AACTTCTACAACAACAGAACCAACAACAACTTCTACAACAACAG--------------------------------------------------AAGCAACAA---CAA----------------------CGTCC--ACTGAGGAAATTCCACTTCCG---------------------------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AGCAACAACCACTGCAGCA-ACTACAACAGCAGCTACAACAACAG------------CAGCTACAACAACAGCAGCAA---CTACAACAGCGGCA---------ACAA------------------CTACTG-------CGGCAACAACAACTGCTGCAACAACTACAGCTGCA------------AC---AACAACAGCGGC---AACTAC------------------------T---ACCGCTGCAACAACCAC-------------------------------------------AGCAGCAACAACAACAGCAGCAACAA------------------------------------------------------CCACAGCA--G---CAACAA---CAACAG------------CAGC-----------AA-C------------AACAACA---------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AGCAACAACATCAGCAACA-ACAGCAGCAACAACATGAGCAACAA------------CAGCAGCAACAACAGCAGCAA---CAACAGCAGCAACA---------ACAT------------------GAGCAA-------CAACAGCAGCAACAACATGAACAACAACAGCAGCA------------AC---AACATGGGCAAC---AACAGC------------------------A---GCAACAACGGCAGCAACAA---------CATGAGCAAC----------AACGGCAG------------------------------------CAACATCGGCGGAAGGAGG--------AAGC--GTT--------A-----------CAGCAACTG-GA------CATCGGCCAACATATT----------AACC--GCAGCCGCAGCGTCGCTGATG---------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AGCAACAACAGCAGCAGCA-ACAACAACAGCAGCAGCAACAACAG------------CAGCAGCAACAACAACAGCAG---CAGCAACAACAACA---------GCAG------------------CAGCAA-------CAACAGCAGCAGCAACAACAGC---AGC---AACA------------GCAACAACAACAACAGC---AGCAAC------------------------AGCAACAACAACAACAGCAGCTG---------CAACAACAAC----------A---------------------------TCAGGTCTTG------------------------------------------------------GCACAGCA--A---CAAC---------CTCAGCCTG------GAC-----------AA-CAAG-TCATC-------ACC---------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AGGAGCAACATCAGCAACA-GCAACAACAACAACTGTAGCAGCAA------------CAGCAGCAGCGATATCAACAA---CTGTAGCAGCAACA---------GCAG------------------CAGCGA-------TATCAACAACTGTAGCAGCAGCAGCAAC---AACC---GAGGGA---GCAACAACAGCAACACT---TGCAGC---------------------GGCAACA---GCAACAACTGCAGC-------------------------------AGCTACAGCAGC------AA------------------------CAACAAC------TGC---TGATAAAGA-CCGGC--------------------TG--G---CAACAGCAA---CAGCGGCCACTTG--CAGC-----------AG-C-----------ATATTTCA---------------------------	Size	Hit Count	Total Norm	Total
No Reads

droTak1

AGAACCAACTACTACAACA-ACAACAACGGAACCAACAACTACAA------------CAACAACAACGGAACCAACTA---CTACAACAACCACTACAACAACAACGG------------------AACCCA-------CAACTACTACAACAACCACTAC---------AACT---ACAGAACCCAC---CACTA---CAACAACAACAGA------------------------ACCA---ACTACTACTACAAC-------------------------------AACAGAAC---CAACTACTACTACAACAACAGAACCCA------------------------------------------------------CCACTACA--A---CGACAACAA---CAA----------------------CGAC-AA-CTGAACCACTTCCGTTTCCG---------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

CACTGAGGCTCCCACGACA-ACTACAACCACAACAACATGTGCTT------------CAACAACAACAACGACGACTA---CCACAACAACCACA---------ACCA------------------CAACTA-------CAACGACAACCACAACTACAACAACAACCACAACT------------AC---AACGACAACCAC---AACTAC------------------------AACG---ACAACCACTACTACAT---------GTGCTCC-------------AACAACAACAACGACAAC------------------------------------GACAACTAC--------TACC--ACT--------ACCACA-----------------A-------------------------CAACAACAACT--ACAACTTCAACGACAACCACA---------------------------	Size	Hit Count	Total Norm	Total
No Reads

dm3

AGCAACTACTACTGCAGCA-ACAACTACTGCAGCAACAACTACCG------------CAGCAACAACAACTGCAGCAACTACCACGGCAGCAACA---------ACTA------------------CAGCTG-------CAACTACTGCAGCAA---CAACAACTGCAGCAACA------------AC---AACTGCAGCAAC---AACAAC------------------------T---GCAGCAACAACAACTGCAG---------CAACAACAAC----------TGCAGCAA------CAACTACTGCAGCAACAACTACTG---------CTGC---AACAAC---------------------------------TACTGCT--G---CAACAA-------------------------CTACTGCTGCA--ACGACTGCAGCTCCTT-CTGT---------------------------	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
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.............................................................................................................................................................................................................................................................................AACAACAAC----------TGCAGCAA------CAAC....................................................................................................................................................................................	21	8	0.13	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	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
..........................................................................................................................................................................AACA------------AC---AACTGCAGCAAC---AAC.....................................................................................................................................................................................................................................................................................	21	8	0.13	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	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
.....................................................................................................................................................................................................................................................AACAACAACTGCAG---------CAACAAC...................................................................................................................................................................................................................	21	8	0.13	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	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
........................................................................................................................................................AA---CAACAACTGCAGCAACA------------AC---.......................................................................................................................................................................................................................................................................................................	21	8	0.13	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	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
..........................................................................................................................................................................................AC---AACTGCAGCAAC---AACA....................................................................................................................................................................................................................................................................................	18	9	0.11	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................................................................ACAAC------------------------T---GCAGCAACAACA..........................................................................................................................................................................................................................................	18	9	0.11	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................ACAACTGCAG---------CAACAACA..................................................................................................................................................................................................................	18	9	0.11	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................ACAACTGCAGCAACA------------AC---A......................................................................................................................................................................................................................................................................................................	18	9	0.11	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droSim2

AACGCCAACTACAACGACA-CCAACTACAACAACAATAACAACTA------------CTACAACAACACCAACTACAA---CAACACCAACCACA---------ACGA------------------CACCAA-------CTACAACTACAACAACGCCAACTACAACGACATCA------------AC---TACGACAACACC---AACTAC---------------------AACA------ACTACAACTACAACAA---------CACCAACAAC----------AA------------CAACTACAACAACACCAACACCAA------------------------------------------------------CTACAACA--A---CGACAA---CTACAA------------CAAC-----------GA-C------------AGCTACA---------------------------	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
....CCAACTACAACGACA-CCAACTACAA........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	2	0.50	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0

droSec2

AACAACAACTACTACAACA-ACACCAACCACAACGACACCAACTA------------CACCTACAACAACGCCAACTA---CAACGACACCAACT---------ACGA------------------CAACAC-------CAACTACAACAACAACAACTACAACAACACCAACT------------AC---AACAACACCAAC---TACAAC------------------------AACG---ACAACTACAACAACAC---------CAACTACAAC----------AACAACTA------------------------------------CAACAAC---GCCAAC---------------------------------TACAACG--A---CACCA---------------------------------------ACTACAACAACACCAACTATA---------------------------	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

droYak3

AGCAGCATCAGCAGCAGCA-TCAGCAGCAGCATCAACAGGAGCAA------------CAGCAACGCCAGCAGGAGATG---CAACGTCAGCAGCA---------ACAG------------------CAAATG-------GAACTAATCAAGCAGCAACGCCAGCAACAGGAGCT------------GC---TACTTCAACAGC---AGCAGC------------------------AGCAACAGCAACAACATCAGCAGCAACAGCAA----------CTGCGCCACCA--TACACCAGC------------------------------------------GG---------AC--ACA-TC----ACACTATCAGCAACAACAGCA--G---ACGACA---CCAAAG------------CTGC-----------TG-C------------ATCCTCG---------------------------	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
................GCA-TCAGCAGCAGCATCAACAGGA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
...............AGCA-TCAGCAGCAGCATCAACAGGAGC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...............................ATCAACAGGAGCAA------------CAGCAACGCCAGC................................................................................................................................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................ATCAAGCAGCAACGCCAGC..................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
......................................GGAGCAA------------CAGCAACGCCAGC................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................ACTTCAACAGC---AGCAGC------------------------AGCA......................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
........................................................................................................................................................AGCAACGCCAGCAACAGGAGCT------------GC---.......................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0
............AGCAGCA-TCAGCAGCAGCATCAAC.................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
.................CA-TCAGCAGCAGCATCAACAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	3	0.33	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................AACAGCAACAACATCAGCAGC..................................................................................................................................................................................................................................	21	5	0.20	1	0	1	0	0	0	0	0	0	0	0	0
......ATCAGCAGCAGCA-TCAGCAGCAGCAT.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	6	0.17	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................AGCAGC------------------------AGCAACAGCAACAAC...........................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
......ATCAGCAGCAGCA-TCAGCA............................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0

droEre2

TACAACAACCTGTACAACT-ACAACTACGACTACTACAACAACTA------------CAACAACTACAACAACCTGTA---CAACTACAACTACA---------ACAA------------------CCTGTA-------CAACTACAACTACGACTACTACAACAACCTGTACAACTACAACTACGAC---TACTA---CAACAACTACAAC------------------------AACC---TGTACAACTACAAC-------------------------------TACGACTA---CTACAACAACTACAACAACTACAACAA------------------------------------------------------CCTGTACA--A---CTACAACTA---CAACAACCTGTACAC-------CAGAAATT--ACAACTACAACACCGTGTACA---------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
................................ACTACAACAACTA------------CAACAACTACAAC................................................................................................................................................................................................................................................................................................................................................................................................................................	26	2	0.50	1	0	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................A---CTACAACAACTACAACAACTACAAC..................................................................................................................................................................	26	2	0.50	1	0	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................AACTACAACAACTACAACAA------------------------------------------------------CCT.......................................................................................................	23	2	0.50	1	0	1	0	0	0	0	0
.................................................................................CAACTACAACTACA---------ACAA------------------CCTGTA-------CAAC.......................................................................................................................................................................................................................................................................................................................................................	28	2	0.50	1	0	1	0	0	0	0	0
........................................AACTA------------CAACAACTACAACAACCT...........................................................................................................................................................................................................................................................................................................................................................................................................................	23	2	0.50	1	0	1	0	0	0	0	0
.................................CTACAACAACTA------------CAACAACTACAAC................................................................................................................................................................................................................................................................................................................................................................................................................................	25	2	0.50	1	0	1	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................CTACAACAACTACAACAACTACAAC..................................................................................................................................................................	25	2	0.50	1	0	1	0	0	0	0	0
...............................................................................................................................................TACAACTACGACTACTACAACAACCT.............................................................................................................................................................................................................................................................................................................................	26	3	0.33	1	0	1	0	0	0	0	0
..........................................................................................................................................................CTACTACAACAACCTGTACAACTACAACT...............................................................................................................................................................................................................................................................................................................	29	3	0.33	1	0	1	0	0	0	0	0
...........................................................................................................................................................TACTACAACAACCTGTACAACTACAAC................................................................................................................................................................................................................................................................................................................	27	3	0.33	1	0	1	0	0	0	0	0
..........................................................................................................................................................CTACTACAACAACCTGTACAACTACA..................................................................................................................................................................................................................................................................................................................	26	3	0.33	1	0	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................CAACTA---CAACAACCTGTACAC-------C.........................................................	22	3	0.33	1	0	1	0	0	0	0	0
......................................................................................................................................................ACGACTACTACAACAACCTGTAC.........................................................................................................................................................................................................................................................................................................................	23	3	0.33	1	0	1	0	0	0	0	0
....................................................................................CTACAACTACA---------ACAA------------------CCTGTA-------CAAC.......................................................................................................................................................................................................................................................................................................................................................	25	4	0.25	1	0	1	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................A--A---CTACAACTA---CAACAACCTGTA....................................................................	23	5	0.20	1	0	1	0	0	0	0	0
.............................................................................A---CAACTACAACTACA---------ACAA------------------CCTGT...................................................................................................................................................................................................................................................................................................................................................................	24	5	0.20	1	0	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................ACA--A---CTACAACTA---CAACAACC........................................................................	21	5	0.20	1	0	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................CA--A---CTACAACTA---CAACAACCTGTAC...................................................................	25	5	0.20	1	0	1	0	0	0	0	0
...............................................................................................................................................................................CTACAACTACGAC---TACTA---CAACAACTAC.....................................................................................................................................................................................................................................................................................	28	10	0.20	2	0	2	0	0	0	0	0
..........................................CTA------------CAACAACTACAACAACCTGTA---C....................................................................................................................................................................................................................................................................................................................................................................................................................	25	10	0.20	2	0	2	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................................................................................................AATT--ACAACTACAACACCGTGT..............................	22	5	0.20	1	0	0	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................................TT--ACAACTACAACACCGTGT..............................	20	5	0.20	1	0	0	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................CA--A---CTACAACTA---CAACAACCC.......................................................................	21	5	0.20	1	0	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................AACAACCTGTACAC-------CAGAAATT--AC..............................................	24	5	0.20	1	0	1	0	0	0	0	0
.............................................................................A---CAACTACAACTACA---------ACAA------------------CC......................................................................................................................................................................................................................................................................................................................................................................	21	5	0.20	1	0	1	0	0	0	0	0
............................GACTACTACAACAACTA------------CAAC.........................................................................................................................................................................................................................................................................................................................................................................................................................................	21	10	0.20	2	0	2	0	0	0	0	0
.........................................................................................................................................................................................GAC---TACTA---CAACAACTACAAC------------------------..........................................................................................................................................................................................................................................................	21	10	0.20	2	0	2	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................CTACAACAACTACAACAA------------------------------------------------------CCTGTAC...................................................................................................	25	10	0.20	2	0	2	0	0	0	0	0
.................................................................................CAACTACAACTACA---------ACAA------------------CCC.....................................................................................................................................................................................................................................................................................................................................................................	21	5	0.20	1	0	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................ATT--ACAACTACAACACCGTGT..............................	21	5	0.20	1	0	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................................................C-------CAGAAATT--ACAACTACAACACCGTGTAC............................	29	5	0.20	1	0	1	0	0	0	0	0
..................................................................................AACTACAACTACA---------ACAA------------------CCTGTA-------...........................................................................................................................................................................................................................................................................................................................................................	23	5	0.20	1	0	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................CAC-------CAGAAATT--ACAACTACAAC.....................................	22	5	0.20	1	0	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................ACAC-------CAGAAATT--ACAACTACAACACC..................................	26	5	0.20	1	0	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................CTACAAC-------------------------------TACGACTA---CTACAACAACTAC..............................................................................................................................................................................	28	10	0.20	2	0	2	0	0	0	0	0
.................CT-ACAACTACGACTACTACAACAACTA------------C............................................................................................................................................................................................................................................................................................................................................................................................................................................	28	10	0.20	2	0	2	0	0	0	0	0
.................................................................................CAACTACAACTACA---------ACAA------------------CCTGTA-------C..........................................................................................................................................................................................................................................................................................................................................................	25	5	0.20	1	0	1	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................GACTA---CTACAACAACTACAAC...........................................................................................................................................................................	21	10	0.20	2	0	2	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................ATT--ACAACTACAACACCGC................................	19	5	0.20	1	0	1	0	0	0	0	0
.................................................................................................................................................................................................CTA---CAACAACTACAAC------------------------AACC---TGTAC..............................................................................................................................................................................................................................................	25	10	0.20	2	0	2	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................CAACAACCTGTACAC-------CAGA......................................................	19	5	0.20	1	0	0	0	1	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................ACA--A---CTACAACTA---CAACAACCTGT.....................................................................	24	5	0.20	1	0	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................AACAACCTGTACAC-------CAGAAATT--ACAACT..........................................	28	5	0.20	1	0	1	0	0	0	0	0
.........................................................................................................................................................................GTACAACTACAACTACGAC---TACTA---CAAC...........................................................................................................................................................................................................................................................................................	28	11	0.18	2	0	2	0	0	0	0	0
....................................................................................................................................................................................................................................................GTACAACTACAAC-------------------------------TACGACTA---CTACAAC....................................................................................................................................................................................	28	11	0.18	2	0	2	0	0	0	0	0
.................................................................................................................................GTA-------CAACTACAACTACGACTACTACAAC..................................................................................................................................................................................................................................................................................................................................	28	11	0.18	2	0	2	0	0	0	0	0
...........GTACAACT-ACAACTACGACTACTACAAC..............................................................................................................................................................................................................................................................................................................................................................................................................................................................	28	11	0.18	2	0	2	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................CTGTACAC-------CAGAAATT--ACAACTA.........................................	23	6	0.17	1	0	1	0	0	0	0	0
...............................................................................................................................................................................CTACAACTACGAC---TACTA---CAACAAC........................................................................................................................................................................................................................................................................................	25	13	0.15	2	0	2	0	0	0	0	0
.................CT-ACAACTACGACTACTACAACAAC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	13	0.15	2	0	2	0	0	0	0	0
..............................................................................................................................................CTACAACTACGACTACTACAACAAC...............................................................................................................................................................................................................................................................................................................................	25	13	0.15	2	0	2	0	0	0	0	0
..........................................................................................................................................................................................................................................................CTACAAC-------------------------------TACGACTA---CTACAACAAC.................................................................................................................................................................................	25	13	0.15	2	0	2	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................CTACAACTA---CAACAACCTGT.....................................................................	20	7	0.14	1	0	0	0	1	0	0	0
..................................................................................................................................................................................................................................................................................................................................ACAA------------------------------------------------------CCTGTACA--A---CTACAACTA---CAAC............................................................................	26	7	0.14	1	0	1	0	0	0	0	0
....................................................................................CTACAACTACA---------ACAA------------------CCTGT...................................................................................................................................................................................................................................................................................................................................................................	20	7	0.14	1	0	0	0	1	0	0	0
...................................................................................ACTACAACTACA---------ACAA------------------CCT.....................................................................................................................................................................................................................................................................................................................................................................	19	7	0.14	1	0	1	0	0	0	0	0
....................................................................ACAACCTGTA---CAACTACAACTACA---------AC............................................................................................................................................................................................................................................................................................................................................................................................	26	7	0.14	1	0	1	0	0	0	0	0
...................................................................................ACTACAACTACA---------ACAA------------------CCTGTA-------...........................................................................................................................................................................................................................................................................................................................................................	22	7	0.14	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................A---CTACAACTA---CAACAACCTGTA....................................................................	22	7	0.14	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................A---CTACAACTA---CAACAACCT.......................................................................	19	7	0.14	1	0	1	0	0	0	0	0
..........................................................................................................................................................................................................CAACTACAAC------------------------AACC---TGTACAAC...........................................................................................................................................................................................................................................	22	16	0.13	2	0	2	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................CAACTACAACAA------------------------------------------------------CCTGTACA--A---C...........................................................................................	22	16	0.13	2	0	2	0	0	0	0	0
...........................................................................................................................................................................................C---TACTA---CAACAACTACAAC------------------------AACC---TGTAC..............................................................................................................................................................................................................................................	28	8	0.13	1	0	1	0	0	0	0	0
...............................................................................................................................................................................................TACTA---CAACAACTACAAC------------------------AACC---TGTAC..............................................................................................................................................................................................................................................	27	8	0.13	1	0	1	0	0	0	0	0
.......................................................................................CAACTACA---------ACAA------------------CCTGTA-------CAAC.......................................................................................................................................................................................................................................................................................................................................................	22	16	0.13	2	0	2	0	0	0	0	0
.....................................................................................................................................................................................CTACGAC---TACTA---CAACAACTACAAC------------------------AACC---...................................................................................................................................................................................................................................................	29	8	0.13	1	0	1	0	0	0	0	0
...........................................................................................................................................................................................C---TACTA---CAACAACTACAAC------------------------AACC---TGTA...............................................................................................................................................................................................................................................	27	8	0.13	1	0	1	0	0	0	0	0
.......................................................................................................................................................................................ACGAC---TACTA---CAACAACTACAAC------------------------AACC---T..................................................................................................................................................................................................................................................	28	8	0.13	1	0	1	0	0	0	0	0
...............................................................................................................................................................................................TACTA---CAACAACTACAAC------------------------AACC---...................................................................................................................................................................................................................................................	22	8	0.13	1	1	0	0	0	0	0	0
............................................................CAACTACAACAACCTGTA---CAAC.................................................................................................................................................................................................................................................................................................................................................................................................................	22	16	0.13	2	0	2	0	0	0	0	0
..............................................................................................A---------ACAA------------------CCTGTA-------CAACTACAACTAC..............................................................................................................................................................................................................................................................................................................................................	24	18	0.11	2	0	2	0	0	0	0	0
.....................................................................................TACAACTACA---------ACAA------------------CCTGTA-------...........................................................................................................................................................................................................................................................................................................................................................	20	9	0.11	1	1	0	0	0	0	0	0
.................................................................................................................................................................AACAACCTGTACAACTACAACTAC.............................................................................................................................................................................................................................................................................................................	24	18	0.11	2	0	2	0	0	0	0	0
...................................................................AACAACCTGTA---CAACTACAACTAC........................................................................................................................................................................................................................................................................................................................................................................................................	24	18	0.11	2	0	2	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................TACAACTA---CAACAACCTGTA....................................................................	20	9	0.11	1	1	0	0	0	0	0	0
...AACAACCTGTACAACT-ACAACTAC..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	18	0.11	2	0	2	0	0	0	0	0
.................................................................................................................................................................................................................AAC------------------------AACC---TGTACAACTACAAC-------------------------------TAC...................................................................................................................................................................................................	24	18	0.11	2	0	2	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................AACAA------------------------------------------------------CCTGTACA--A---CTACAACTA---C...............................................................................	24	18	0.11	2	0	2	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................ACTACAACAACTACAACAA------------------------------------------------------CCTGTA....................................................................................................	25	10	0.10	1	0	1	0	0	0	0	0
.................................................................................................................................................................................................CTA---CAACAACTACAAC------------------------AACC---TGTACAA............................................................................................................................................................................................................................................	27	10	0.10	1	0	1	0	0	0	0	0
.................................................................................................................................................................................................CTA---CAACAACTACAAC------------------------AACC---TGT................................................................................................................................................................................................................................................	23	10	0.10	1	0	1	0	0	0	0	0
........................CTACGACTACTACAACAACTA------------CAAC.........................................................................................................................................................................................................................................................................................................................................................................................................................................	25	10	0.10	1	0	1	0	0	0	0	0
..........................................CTA------------CAACAACTACAACAACCTGTA---CAAC.................................................................................................................................................................................................................................................................................................................................................................................................................	28	10	0.10	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................ACAACAACTACAACAA------------------------------------------------------CCTGTA....................................................................................................	22	10	0.10	1	0	1	0	0	0	0	0
...................................................................................................................................................................................................A---CAACAACTACAAC------------------------AACC---TGTACAACT..........................................................................................................................................................................................................................................	27	10	0.10	1	0	1	0	0	0	0	0
................................................................................................................................................................................................ACTA---CAACAACTACAAC------------------------AACC---TGTACAAC...........................................................................................................................................................................................................................................	29	10	0.10	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................ACAACAACTACAACAA------------------------------------------------------CCTGTACA--A---CTAC........................................................................................	29	10	0.10	1	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................AACAACTACAACAA------------------------------------------------------CCTGTACA--A---C...........................................................................................	24	10	0.10	1	0	1	0	0	0	0	0
..........................................................AACAACTACAACAACCTGTA---C....................................................................................................................................................................................................................................................................................................................................................................................................................	21	10	0.10	1	0	1	0	0	0	0	0
................................................................................................................................................................................................................................................................C-------------------------------TACGACTA---CTACAACAACTACAAC...........................................................................................................................................................................	25	10	0.10	1	0	1	0	0	0	0	0
........................................................................................................................................................................................................AACAACTACAAC------------------------AACC---TGTACAAC...........................................................................................................................................................................................................................................	24	10	0.10	1	0	1	0	0	0	0	0
.................................................................................................................................................................................................CTA---CAACAACTACAAC------------------------AACC---TGTACAAC...........................................................................................................................................................................................................................................	28	10	0.10	1	0	1	0	0	0	0	0
............................................A------------CAACAACTACAACAACCTGTA---CAACT................................................................................................................................................................................................................................................................................................................................................................................................................	27	10	0.10	1	0	1	0	0	0	0	0
.....................................................................................................................................................................................CTACGAC---TACTA---CAACAACTACAAC------------------------..........................................................................................................................................................................................................................................................	25	10	0.10	1	0	1	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................ACTACAACAACTACAACAA------------------------------------------------------CCTGTACA--A---C...........................................................................................	29	10	0.10	1	0	1	0	0	0	0	0
..........................................CTA------------CAACAACTACAACAACCTGT.........................................................................................................................................................................................................................................................................................................................................................................................................................	23	10	0.10	1	0	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................CTACAACAACTACAACAA------------------------------------------------------CCTGTACA--A---............................................................................................	27	10	0.10	1	0	1	0	0	0	0	0
...................................................................................................................................................................................................A---CAACAACTACAAC------------------------AACC---TGTACAACTAC........................................................................................................................................................................................................................................	29	10	0.10	1	0	1	0	0	0	0	0
..........................................................AACAACTACAACAACCTGT.........................................................................................................................................................................................................................................................................................................................................................................................................................	19	10	0.10	1	0	1	0	0	0	0	0
........................................................................................................................................................................................................AACAACTACAAC------------------------AACC---TGTAC..............................................................................................................................................................................................................................................	21	10	0.10	1	0	1	0	0	0	0	0
............................................A------------CAACAACTACAACAACCTGTA---.....................................................................................................................................................................................................................................................................................................................................................................................................................	22	10	0.10	1	0	1	0	0	0	0	0
.........................................ACTA------------CAACAACTACAACAACCTGTA---.....................................................................................................................................................................................................................................................................................................................................................................................................................	25	10	0.10	1	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................AACAACTACAACAA------------------------------------------------------CCTGT.....................................................................................................	19	10	0.10	1	0	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................CTACAACAACTACAACAA------------------------------------------------------CCTGTACA--A---C...........................................................................................	28	10	0.10	1	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................AACAACTACAACAA------------------------------------------------------CCTGTAC...................................................................................................	21	10	0.10	1	0	1	0	0	0	0	0
............................................A------------CAACAACTACAACAACCTGTA---CAACTAC..............................................................................................................................................................................................................................................................................................................................................................................................................	29	10	0.10	1	0	1	0	0	0	0	0
.................................................................................................................................................................................ACAACTACGAC---TACTA---CAACAACT.......................................................................................................................................................................................................................................................................................	24	10	0.10	1	0	1	0	0	0	0	0
.........................................ACTA------------CAACAACTACAACAACCTGTA---CAAC.................................................................................................................................................................................................................................................................................................................................................................................................................	29	10	0.10	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................ACAACAACTACAACAA------------------------------------------------------CCTGTACA--A---CT..........................................................................................	27	10	0.10	1	0	1	0	0	0	0	0
........................................................................................................................................................................................................AACAACTACAAC------------------------AACC---TGT................................................................................................................................................................................................................................................	19	10	0.10	1	0	1	0	0	0	0	0
..........................................CTA------------CAACAACTACAACAACCTGTA---CAA..................................................................................................................................................................................................................................................................................................................................................................................................................	27	10	0.10	1	0	1	0	0	0	0	0
....................ACAACTACGACTACTACAACAACT..........................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	10	0.10	1	0	1	0	0	0	0	0
...................................................................................................................................................................................................A---CAACAACTACAAC------------------------AACC---TGTA...............................................................................................................................................................................................................................................	22	10	0.10	1	0	1	0	0	0	0	0
............................................................................................................................................................................................................................................................ACAAC-------------------------------TACGACTA---CTACAACAACT................................................................................................................................................................................	24	10	0.10	1	0	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................CTACAACAACTACAACAA------------------------------------------------------CCTGT.....................................................................................................	23	10	0.10	1	0	1	0	0	0	0	0
................................................................................................................................................................................................ACTA---CAACAACTACAAC------------------------AACC---TGTA...............................................................................................................................................................................................................................................	25	10	0.10	1	0	1	0	0	0	0	0
..........................................................AACAACTACAACAACCTGTA---CAAC.................................................................................................................................................................................................................................................................................................................................................................................................................	24	10	0.10	1	0	1	0	0	0	0	0
...................................................................................................................................................................................................................C------------------------AACC---TGTACAACTACAAC-------------------------------TACGACT...............................................................................................................................................................................................	26	11	0.09	1	0	0	0	1	0	0	0
....................................................................................................................................................................................................................................................GTACAACTACAAC-------------------------------TACGACTA---A..........................................................................................................................................................................................	22	11	0.09	1	0	1	0	0	0	0	0
.........................................................................................................................................................................GTACAACTACAACTACGAC---TACT...................................................................................................................................................................................................................................................................................................	23	11	0.09	1	0	1	0	0	0	0	0
..........................................................................................................AA------------------CCTGTA-------CAACTACAACTACGAC...........................................................................................................................................................................................................................................................................................................................................	24	11	0.09	1	0	1	0	0	0	0	0
...........................................TA------------CAACAACTACAACAACC............................................................................................................................................................................................................................................................................................................................................................................................................................	19	11	0.09	1	0	1	0	0	0	0	0
TACAACAACCTGTACAACT-ACAACTACG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	28	11	0.09	1	1	0	0	0	0	0	0
................................................................................................................................TGTA-------CAACTACAACTACGAC...........................................................................................................................................................................................................................................................................................................................................	20	11	0.09	1	0	1	0	0	0	0	0
......AACCTGTACAACT-ACAACTACGAC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................	24	11	0.09	1	0	1	0	0	0	0	0
....................................................................................................................................................................AACCTGTACAACTACAACTACGAC---TAC....................................................................................................................................................................................................................................................................................................	27	11	0.09	1	0	1	0	0	0	0	0
....ACAACCTGTACAACT-ACAACTACGA........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	11	0.09	1	0	1	0	0	0	0	0
..CAACAACCTGTACAACT-ACAACTACGAC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................	28	11	0.09	1	0	1	0	0	0	0	0
...........GTACAACT-ACAACTACGACTACT...................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	11	0.09	1	0	1	0	0	0	0	0
............................................................................................................................................................................................................................................AACC---TGTACAACTACAAC-------------------------------TACGACTA---C..........................................................................................................................................................................................	27	11	0.09	1	0	1	0	0	0	0	0
..........................................................................................................AA------------------CCTGTA-------CAACTACAACTACGACTAC........................................................................................................................................................................................................................................................................................................................................	27	11	0.09	1	0	1	0	0	0	0	0
..........TGTACAACT-ACAACTACGAC.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	11	0.09	1	0	1	0	0	0	0	0
...................................................................................................................................................................CAACCTGTACAACTACAACTACGAC---T......................................................................................................................................................................................................................................................................................................	26	11	0.09	1	0	0	0	1	0	0	0
......AACCTGTACAACT-ACAACTACGACTAC....................................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	11	0.09	1	0	1	0	0	0	0	0
.....CAACCTGTACAACT-ACAACTACGACT......................................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	11	0.09	1	0	0	0	1	0	0	0
................................................................................................................................................................................................................CAAC------------------------AACC---TGTACAACTACAAC-------------------------------TACGAC................................................................................................................................................................................................	28	11	0.09	1	0	1	0	0	0	0	0
..................................................................................................................................................................................................................AC------------------------AACC---TGTACAACTACAAC-------------------------------TACGA.................................................................................................................................................................................................	25	11	0.09	1	0	1	0	0	0	0	0
.........................................................................................................CAA------------------CCTGTA-------CAACTACAACTACGACT..........................................................................................................................................................................................................................................................................................................................................	26	11	0.09	1	0	0	0	1	0	0	0
...................................................................................................................................................................................................................................................TGTACAACTACAAC-------------------------------TACGAC................................................................................................................................................................................................	20	11	0.09	1	0	1	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................TACAACAACTACAACAA------------------------------------------------------CC........................................................................................................	19	11	0.09	1	0	1	0	0	0	0	0
.................................................................................................................................GTA-------CAACTACAACTACGACTAA........................................................................................................................................................................................................................................................................................................................................	22	11	0.09	1	0	1	0	0	0	0	0
.................................................................................................................................GTA-------CAACTACAACTACGACTACT.......................................................................................................................................................................................................................................................................................................................................	23	11	0.09	1	0	1	0	0	0	0	0
........................................................................................................................................................................TGTACAACTACAACTACGAC---.......................................................................................................................................................................................................................................................................................................	20	11	0.09	1	0	1	0	0	0	0	0
...........GTACAACT-ACAACTACGACTAA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................	22	11	0.09	1	0	1	0	0	0	0	0
....................................................................................................................................................................................................................................................GTACAACTACAAC-------------------------------TACGACTA---CT.........................................................................................................................................................................................	23	11	0.09	1	0	1	0	0	0	0	0
....................................................................................................................................................................AACCTGTACAACTACAACTACGAC---.......................................................................................................................................................................................................................................................................................................	24	11	0.09	1	0	1	0	0	0	0	0
...........................................................................................TACA---------ACAA------------------CCTGTA-------CAACTACAACTACG.............................................................................................................................................................................................................................................................................................................................................	28	11	0.09	1	1	0	0	0	0	0	0
..............................................................................................................................................................TACAACAACCTGTACAACTACAACTACG............................................................................................................................................................................................................................................................................................................	28	11	0.09	1	1	0	0	0	0	0	0
................................................................................................................................................................CAACAACCTGTACAACTACAACTACGAC---.......................................................................................................................................................................................................................................................................................................	28	11	0.09	1	0	1	0	0	0	0	0
..................................................................................................................................................................................................TA---CAACAACTACAAC------------------------AACC---...................................................................................................................................................................................................................................................	19	11	0.09	1	0	1	0	0	0	0	0
.........................................................................................................................................................................GTACAACTACAACTACGAC---TAA....................................................................................................................................................................................................................................................................................................	22	11	0.09	1	0	1	0	0	0	0	0
..................................................................................................................................................................ACAACCTGTACAACTACAACTACGA...........................................................................................................................................................................................................................................................................................................	25	11	0.09	1	0	1	0	0	0	0	0
.............................................................................................CA---------ACAA------------------CCTGTA-------CAACTACAACTACGAC...........................................................................................................................................................................................................................................................................................................................................	28	11	0.09	1	0	1	0	0	0	0	0
..............................................................................................................................................................................................................TACAAC------------------------AACC---TGTACAACTACAAC-------------------------------TACG..................................................................................................................................................................................................	28	11	0.09	1	1	0	0	0	0	0	0
............................................................................................................................................................................................................................................AACC---TGTACAACTACAAC-------------------------------TACGAC................................................................................................................................................................................................	24	11	0.09	1	0	1	0	0	0	0	0
........................................................................................................ACAA------------------CCTGTA-------CAACTACAACTACGA............................................................................................................................................................................................................................................................................................................................................	25	11	0.09	1	0	1	0	0	0	0	0
............TACAACT-ACAACTACGACTACTACAAC..............................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	12	0.08	1	0	1	0	0	0	0	0
..................................................................................................................................TA-------CAACTACAACTACGACTACTACAAC..................................................................................................................................................................................................................................................................................................................................	27	12	0.08	1	0	1	0	0	0	0	0
.....................................................................................................................................................................................................................................................TACAACTACAAC-------------------------------TACGACTA---CTACAAC....................................................................................................................................................................................	27	12	0.08	1	0	1	0	0	0	0	0
..........................................................................................................................................................................TACAACTACAACTACGAC---TACTA---CAAC...........................................................................................................................................................................................................................................................................................	27	12	0.08	1	0	1	0	0	0	0	0
..............CAACT-ACAACTACGACTACTACAACA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	13	0.08	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................ACAACTACAAC-------------------------------TACGACTA---CTACAACA...................................................................................................................................................................................	27	13	0.08	1	0	1	0	0	0	0	0
...........................................................................................................................................................................ACAACTACAACTACGAC---TACTA---CAACA..........................................................................................................................................................................................................................................................................................	27	13	0.08	1	0	1	0	0	0	0	0
.............ACAACT-ACAACTACGACTACTACAACAAC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................	29	13	0.08	1	0	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................CAACTACAAC-------------------------------TACGACTA---CTACAACA...................................................................................................................................................................................	26	13	0.08	1	0	1	0	0	0	0	0
...........................................................................................................................................................................ACAACTACAACTACGAC---TACTA---CAAC...........................................................................................................................................................................................................................................................................................	26	13	0.08	1	0	1	0	0	0	0	0
..............................................................................................................................................CTACAACTACGACTACTACAA...................................................................................................................................................................................................................................................................................................................................	21	13	0.08	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................ACAACTACAAC-------------------------------TACGACTA---CTACAAC....................................................................................................................................................................................	26	13	0.08	1	0	1	0	0	0	0	0
...............................................................................................................................................................................CTACAACTACGAC---TACTA---CAA............................................................................................................................................................................................................................................................................................	21	13	0.08	1	0	1	0	0	0	0	0
.............ACAACT-ACAACTACGACTACTACAAC..............................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	13	0.08	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................ACAACTACAAC-------------------------------TACGACTA---CTACAACAAC.................................................................................................................................................................................	29	13	0.08	1	0	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................CTACAAC-------------------------------TACGACTA---CTACAA.....................................................................................................................................................................................	21	13	0.08	1	0	1	0	0	0	0	0
...................................................................................................................................A-------CAACTACAACTACGACTACTACAAC..................................................................................................................................................................................................................................................................................................................................	26	13	0.08	1	0	1	0	0	0	0	0
.............ACAACT-ACAACTACGACTACTACAACA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	13	0.08	1	0	1	0	0	0	0	0
...................................................................................................................................A-------CAACTACAACTACGACTACTACAACA.................................................................................................................................................................................................................................................................................................................................	27	13	0.08	1	0	1	0	0	0	0	0
.................CT-ACAACTACGACTACTACAA...............................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	13	0.08	1	0	1	0	0	0	0	0
...........................................................................................................................................CAACTACAACTACGACTACTACAACA.................................................................................................................................................................................................................................................................................................................................	26	13	0.08	1	0	1	0	0	0	0	0
.............................................................................................................................................ACTACAACTACGACTACTACAAC..................................................................................................................................................................................................................................................................................................................................	23	13	0.08	1	0	1	0	0	0	0	0
...................................................................................................................................A-------CAACTACAACTACGACTACTACAACAAC...............................................................................................................................................................................................................................................................................................................................	29	13	0.08	1	0	1	0	0	0	0	0
...........................................................................................................................................................................ACAACTACAACTACGAC---TACTA---CAACAAC........................................................................................................................................................................................................................................................................................	29	13	0.08	1	0	1	0	0	0	0	0
.........................................................................................................................................................................................................................................................ACTACAAC-------------------------------TACGACTA---CTACAAC....................................................................................................................................................................................	23	13	0.08	1	0	1	0	0	0	0	0
..............................................................................................................................................................................ACTACAACTACGAC---TACTA---CAAC...........................................................................................................................................................................................................................................................................................	23	13	0.08	1	0	1	0	0	0	0	0
................ACT-ACAACTACGACTACTACAAC..............................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	13	0.08	1	0	1	0	0	0	0	0
............................................................................................................................................................................CAACTACAACTACGAC---TACTA---CAACA..........................................................................................................................................................................................................................................................................................	26	13	0.08	1	0	1	0	0	0	0	0
...............AACT-ACAACTACGACTACTAC.................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	14	0.07	1	0	1	0	0	0	0	0
..............CAACT-ACAACTACGACTACTA..................................................................................................................................................................................................................................................................................................................................................................................................................................................................	21	14	0.07	1	0	1	0	0	0	0	0
.............ACAACT-ACAACTACGACTA.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	14	0.07	1	0	1	0	0	0	0	0
.............................................................................................................................................................................AACTACAACTACGAC---TACTA---C..............................................................................................................................................................................................................................................................................................	21	14	0.07	1	0	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................CAACTACAAC-------------------------------TACGACTA---CTA........................................................................................................................................................................................	21	14	0.07	1	0	1	0	0	0	0	0
...........................................................................................................................................................................ACAACTACAACTACGAC---TACTA---C..............................................................................................................................................................................................................................................................................................	23	14	0.07	1	0	1	0	0	0	0	0
...................................................................................................................................A-------CAACTACAACTACGACTAC........................................................................................................................................................................................................................................................................................................................................	20	14	0.07	1	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................................AACTACAAC-------------------------------TACGACTA---CT.........................................................................................................................................................................................	19	14	0.07	1	0	1	0	0	0	0	0
............................................................................................................................................AACTACAACTACGACTACTAC.....................................................................................................................................................................................................................................................................................................................................	21	14	0.07	1	0	1	0	0	0	0	0
.............ACAACT-ACAACTACGACTACTAC.................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	14	0.07	1	0	1	0	0	0	0	0
............................................................................................................................................................................CAACTACAACTACGAC---TACTA---...............................................................................................................................................................................................................................................................................................	21	14	0.07	1	0	1	0	0	0	0	0
...................................................................................................................................A-------CAACTACAACTACGACTACTAC.....................................................................................................................................................................................................................................................................................................................................	23	14	0.07	1	0	1	0	0	0	0	0
.............................................................................................................................................................................AACTACAACTACGAC---TACT...................................................................................................................................................................................................................................................................................................	19	14	0.07	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................ACAACTACAAC-------------------------------TACGACTA---CTAC.......................................................................................................................................................................................	23	14	0.07	1	0	1	0	0	0	0	0
...........................................................................................................................................................................ACAACTACAACTACGAC---TAC....................................................................................................................................................................................................................................................................................................	20	14	0.07	1	0	1	0	0	0	0	0
...............AACT-ACAACTACGACTACT...................................................................................................................................................................................................................................................................................................................................................................................................................................................................	19	14	0.07	1	0	1	0	0	0	0	0
...................................................................................................................................A-------CAACTACAACTACGACTA.........................................................................................................................................................................................................................................................................................................................................	19	14	0.07	1	0	1	0	0	0	0	0
.............ACAACT-ACAACTACGACTAC....................................................................................................................................................................................................................................................................................................................................................................................................................................................................	20	14	0.07	1	0	1	0	0	0	0	0
...........................................................................................................................................CAACTACAACTACGACTACTA......................................................................................................................................................................................................................................................................................................................................	21	14	0.07	1	0	1	0	0	0	0	0
............................................................................................................................................AACTACAACTACGACTACT.......................................................................................................................................................................................................................................................................................................................................	19	14	0.07	1	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................................AACTACAAC-------------------------------TACGACTA---CTAC.......................................................................................................................................................................................	21	14	0.07	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................ACAACTACAAC-------------------------------TACGACTA---...........................................................................................................................................................................................	19	14	0.07	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................ACAACTACAAC-------------------------------TACGACTA---C..........................................................................................................................................................................................	20	14	0.07	1	0	1	0	0	0	0	0
...........................................................................................................................................................................ACAACTACAACTACGAC---TA.....................................................................................................................................................................................................................................................................................................	19	14	0.07	1	0	1	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................ACAACTACAACAA------------------------------------------------------CCTGTACA--A---C...........................................................................................	23	16	0.06	1	0	1	0	0	0	0	0
...........................................................ACAACTACAACAACCTGTA---CAAC.................................................................................................................................................................................................................................................................................................................................................................................................................	23	16	0.06	1	0	1	0	0	0	0	0
......................................................................................ACAACTACA---------ACAA------------------CCTGTA-------CAAC.......................................................................................................................................................................................................................................................................................................................................................	23	16	0.06	1	0	1	0	0	0	0	0
.........................................................................................................................................................................................................ACAACTACAAC------------------------AACC---TGTACAAC...........................................................................................................................................................................................................................................	23	16	0.06	1	0	1	0	0	0	0	0
.............................................................................................CA---------ACAA------------------CCTGTA-------CAACTACAACTAC..............................................................................................................................................................................................................................................................................................................................................	25	18	0.06	1	0	1	0	0	0	0	0
TACAACAACCTGTACAACT-ACAACTAC..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	27	18	0.06	1	0	1	0	0	0	0	0
................................................................TACAACAACCTGTA---CAACTACAACTA.........................................................................................................................................................................................................................................................................................................................................................................................................	26	18	0.06	1	0	1	0	0	0	0	0
..CAACAACCTGTACAACT-ACAACTAC..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	25	18	0.06	1	0	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................TACAACAA------------------------------------------------------CCTGTACA--A---CTACAACTA---C...............................................................................	27	18	0.06	1	0	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................CTACAACAA------------------------------------------------------CCTGTACA--A---CTACAACTA---C...............................................................................	28	18	0.06	1	0	1	0	0	0	0	0
................................................................................................................................................................CAACAACCTGTACAACTACAACTAC.............................................................................................................................................................................................................................................................................................................	25	18	0.06	1	0	1	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................CAACAA------------------------------------------------------CCTGTACA--A---CTACAACTA---C...............................................................................	25	18	0.06	1	0	1	0	0	0	0	0
...............................................................CTACAACAACCTGTA---CAACTACAACTAC........................................................................................................................................................................................................................................................................................................................................................................................................	28	18	0.06	1	0	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................TACAACAA------------------------------------------------------CCTGTACA--A---CTACAACTA---................................................................................	26	18	0.06	1	0	1	0	0	0	0	0
................................................................................................................................................................................................................CAAC------------------------AACC---TGTACAACTACAAC-------------------------------TAC...................................................................................................................................................................................................	25	18	0.06	1	0	1	0	0	0	0	0
..............................................................................................................................................................TACAACAACCTGTACAACTACAACTA..............................................................................................................................................................................................................................................................................................................	26	18	0.06	1	0	1	0	0	0	0	0
................................................................TACAACAACCTGTA---CAACTACAACTAC........................................................................................................................................................................................................................................................................................................................................................................................................	27	18	0.06	1	0	1	0	0	0	0	0
..........................................................................................CTACA---------ACAA------------------CCTGTA-------CAACTACAACTAC..............................................................................................................................................................................................................................................................................................................................................	28	18	0.06	1	0	1	0	0	0	0	0
..............................................................................................................................................................................................................TACAAC------------------------AACC---TGTACAACTACAAC-------------------------------TA....................................................................................................................................................................................................	26	18	0.06	1	0	1	0	0	0	0	0
..................................................................CAACAACCTGTA---CAACTACAACTAC........................................................................................................................................................................................................................................................................................................................................................................................................	25	18	0.06	1	0	1	0	0	0	0	0
...........................................................................................TACA---------ACAA------------------CCTGTA-------CAACTACAACTAC..............................................................................................................................................................................................................................................................................................................................................	27	18	0.06	1	0	1	0	0	0	0	0
..............................................................................................................................................................................................................TACAAC------------------------AACC---TGTACAACTACAAC-------------------------------TAC...................................................................................................................................................................................................	27	18	0.06	1	0	1	0	0	0	0	0
.............................................................................................................................................................CTACAACAACCTGTACAACTACAACTAC.............................................................................................................................................................................................................................................................................................................	28	18	0.06	1	0	1	0	0	0	0	0
...........................................................................................TACA---------ACAA------------------CCTGTA-------CAACTACAACTA...............................................................................................................................................................................................................................................................................................................................................	26	18	0.06	1	0	1	0	0	0	0	0
..............................................................................................................................................................TACAACAACCTGTACAACTACAACTAC.............................................................................................................................................................................................................................................................................................................	27	18	0.06	1	0	1	0	0	0	0	0
.............................................................................................................................................................................................................CTACAAC------------------------AACC---TGTACAACTACAAC-------------------------------TAC...................................................................................................................................................................................................	28	18	0.06	1	0	1	0	0	0	0	0
TACAACAACCTGTACAACT-ACAACTA...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................	26	18	0.06	1	0	1	0	0	0	0	0
..........................................................................................CTACA---------ACAA------------------CCTGTA-------CAACTA.....................................................................................................................................................................................................................................................................................................................................................	21	19	0.05	1	0	1	0	0	0	0	0
...............................................................CTACAACAACCTGTA---CAACTA...............................................................................................................................................................................................................................................................................................................................................................................................................	21	19	0.05	1	0	1	0	0	0	0	0
..............................................................ACTACAACAACCTGTA---CAAC.................................................................................................................................................................................................................................................................................................................................................................................................................	20	19	0.05	1	0	1	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................ACAACAA------------------------------------------------------CCTGTACA--A---CTACAAC.....................................................................................	23	19	0.05	1	0	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................CTACAACAA------------------------------------------------------CCTGTACA--A---CTACAAC.....................................................................................	25	19	0.05	1	0	1	0	0	0	0	0
...............................................................................................................................................................................................................ACAAC------------------------AACC---TGTACAACTACAAC-------------------------------......................................................................................................................................................................................................	23	19	0.05	1	0	1	0	0	0	0	0
.............................................................................................................................................................................................................CTACAAC------------------------AACC---TGTACAACTA.........................................................................................................................................................................................................................................	21	19	0.05	1	0	1	0	0	0	0	0
.ACAACAACCTGTACAACT-ACAAC.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................	23	19	0.05	1	0	1	0	0	0	0	0
.............................................................................................................................................................................................................CTACAAC------------------------AACC---TGTACAACTACAAC-------------------------------......................................................................................................................................................................................................	25	19	0.05	1	0	1	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................ACTACAACAA------------------------------------------------------CCTGTACA--A---C...........................................................................................	20	19	0.05	1	0	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................CTACAACAA------------------------------------------------------CCTGTACA--A---CTA.........................................................................................	21	19	0.05	1	0	1	0	0	0	0	0
...............................................................................................................................................................ACAACAACCTGTACAACTACAAC................................................................................................................................................................................................................................................................................................................	23	19	0.05	1	0	1	0	0	0	0	0
............................................................................................................................................................ACTACAACAACCTGTACAAC......................................................................................................................................................................................................................................................................................................................	20	19	0.05	1	0	1	0	0	0	0	0
.............................................................................................................................................................CTACAACAACCTGTACAACTACAAC................................................................................................................................................................................................................................................................................................................	25	19	0.05	1	0	1	0	0	0	0	0
...............................................................CTACAACAACCTGTA---CAACTACAAC...........................................................................................................................................................................................................................................................................................................................................................................................................	25	19	0.05	1	0	1	0	0	0	0	0
.........................................................................................ACTACA---------ACAA------------------CCTGTA-------CAAC.......................................................................................................................................................................................................................................................................................................................................................	20	19	0.05	1	0	1	0	0	0	0	0
............................................................................................ACA---------ACAA------------------CCTGTA-------CAACTACAAC.................................................................................................................................................................................................................................................................................................................................................	23	19	0.05	1	0	1	0	0	0	0	0
..........................................................................................CTACA---------ACAA------------------CCTGTA-------CAACTACAAC.................................................................................................................................................................................................................................................................................................................................................	25	19	0.05	1	0	1	0	0	0	0	0

dmo_1068

scaffold_6496:10042377-10042527 +

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