dan_807

CDS [Dana\GF22191-cds]; CDS [Dana\GF22191-cds]; exon [dana_GLEANR_6170:3]; exon [dana_GLEANR_6170:2]; intron [Dana\GF22191-in]

Name	Class	Family	Strand
Gypsy8-I_Dpse-int	LTR	Gypsy	+
TART_DV	LINE	Jockey	+
(CAG)n	Simple_repeat	Simple_repeat	+

##################################################---------------------------------------------------------------------------------------################################################## AGCAACACTCGCCACATGCTCTGGTGCGAGTGAAGAAGGAACCGAATGCGGTCCAGAGGCATCTATCGCCACATCACCACCAGCAACAGCAACCACAACAGACCACACACCTGCAGCAGCAGCAGCAACAGCAACAGCAACAGCAGCAGCATCCGCAGCATCATCTGCAGCAGCAACAGCAACAGCA ************************************************............................................................(((..((.............))..)))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M058 embryo	V106 head	V039 embryo	M044 female body
......................................................................................CAGCAACCGCAACAGACCAAAC...............................................................................	22	2	3	0.33	1	0	0	1	0
.............................................................................................................................................AGCAGCAGCATCCGCAGCA...........................	19	0	4	0.25	1	0	1	0	0
......................................................................................AAACAACCTCAACAGACCACA................................................................................	21	3	6	0.17	1	1	0	0	0
..................................................................................................................................................................ATCTGCAGCAGCAACAGC.......	18	0	7	0.14	1	1	0	0	0
................................................................ATCGCTACAACACCACCA.........................................................................................................	18	2	7	0.14	1	1	0	0	0
........................................................................................................................AGCAGCAACAGCAACAGCAAC..............................................	21	0	20	0.05	1	1	0	0	0
..............................................................................................................................AACAGCAACAGCAACAGCAGCA.......................................	22	0	20	0.05	1	1	0	0	0
....................................................................................AACAGCAACCACAACAAATC...................................................................................	20	2	20	0.05	1	1	0	0	0
.....................................................................................................................AGCAGCAGCAACAGCAACA...................................................	19	0	20	0.05	1	1	0	0	0
.................................................................................................................CAGCAGCAGCAGCAACAG........................................................	18	0	20	0.05	1	1	0	0	0
...................................................................................................................GCAGCAGCAGCAACAGCAACAGC.................................................	23	0	20	0.05	1	0	1	0	0
.........................................................................................................................GCAGCAACAGCAACAGCAAC..............................................	20	0	20	0.05	1	1	0	0	0
..........................................................................................................................CAGCAACAGCAACAGCAACAGCAGCA.......................................	26	0	20	0.05	1	1	0	0	0
..............................................................................................................................AACAGCAACAGCAACAGCAGCAG......................................	23	0	20	0.05	1	0	0	0	1
...............................................................TATCGCCTCATAACCACAA.........................................................................................................	19	3	20	0.05	1	1	0	0	0
...............................................................................................................................ACAGCAACAGCAACAGCAGC........................................	20	0	20	0.05	1	1	0	0	0
......................................................................................................................................CAGCAACAGCAGCAGCATC..................................	19	0	20	0.05	1	0	1	0	0
..........................................................................................AACCACAACAGAAAACAAACC............................................................................	21	3	20	0.05	1	1	0	0	0
...............................................................GATCGCAACATCACAACCA.........................................................................................................	19	3	20	0.05	1	1	0	0	0
..........................................................................................................................CAGCAACAGCAACAGCAAC..............................................	19	0	20	0.05	1	0	1	0	0
.............................................................................................................................CAACAGCAACAGCAACAGCAGC........................................	22	0	20	0.05	1	1	0	0	0
.............................................................................................................................CAACAGCAACAGCAACAGCAGCAGC.....................................	25	0	20	0.05	1	1	0	0	0

TCGTTGTGAGCGGTGTACGAGACCACGCTCACTTCTTCCTTGGCTTACGCCAGGTCTCCGTAGATAGCGGTGTAGTGGTGGTCGTTGTCGTTGGTGTTGTCTGGTGTGTGGACGTCGTCGTCGTCGTTGTCGTTGTCGTTGTCGTCGTCGTAGGCGTCGTAGTAGACGTCGTCGTTGTCGTTGTCGT ************************************************............................................................(((..((.............))..)))************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M044 female body	V039 embryo	V055 head	V105 male body
.......................CACGCCCATTTCTTCCTTGA................................................................................................................................................	20	3	2	0.50	1	1	0	0	0
.................................................................................TCGTTATCGTTGGTGTTTTCT.....................................................................................	21	2	3	0.33	1	1	0	0	0
...........................................................................................................................................TGTCGTCGCCGTAAGCGCCGTA..........................	22	3	6	0.17	1	0	1	0	0
...........................................................................................TTGTGTCGTCTGGTGTGTGGGC..........................................................................	22	3	7	0.14	1	0	0	1	0
....................................................................GGTACAGTGGTGCTCGTTG....................................................................................................	19	3	20	0.10	2	0	0	0	2
.............................................................................................GGGTTGTTTGGTGTGTCGACG.........................................................................	21	3	14	0.07	1	0	1	0	0
..............................................................................TGGTCGTTGTCGGTGCTGTT.........................................................................................	20	2	20	0.05	1	1	0	0	0

Species	Coordinate	ID	Alignment
droAna3	scaffold_12929:1884733-1884919 +	dan_807	AGCAACA-CTCGCC-ACATGCTCTGGTGCGAGTGAAGAAGGAACCGAATGCGGTC-CAG---------AGGCA------------------------TCTATC---------GCCA-CAT-------------------------CACC------------ACCAG-------------------------------------------------CAACAGCAACCACAAC------AGACCA-----C---ACACCTGCAG---------CAGCAGC---------AGCAAC---AGCAACAGCAACAGC---A---GCAGCATCC---------------GCAGCATCATCTGCAGC---AGCAACAGCAACAGCA-
droBip1	scf7180000396543:345525-345708 +		AGCAAAA-CTCGCC-GCATGCTCTGGTGCGGGTGAAGAAGGAACCGAATGCGGTC-CAG---------AGGCA------------------------TCTATC---------GCCG-CAT-------------------------CATC------------ACCAG-------------------------------------------------CAACAGCAACCCCAAC------AGACCG-----C---ACACCTGCAA------------CAGC---------AACATC---AGCAGCAGCAGCAGC---A---ACAGCAGCA---------------GCAGCACCACCTGCAGC---AGCAGCAGCAGCAGCA-
droKik1	scf7180000302685:196373-196535 +		AGCAGCA-TTTACA-GC----------------------------------------------------AGCA------------------------GCAGCA---------ACAG-CAT-------------CTA------------C------------AGCAGCAGCAGCAACAT----------------------------------CACCAGCAGCAACAACAAC---AGCATC-----------------TACAG---CAGCAACAGCAGC---------AGCTGCAGCAACATCTA---CAGC---AGCAACAGCAGCA---------------GCATCATCTACAGCAGC---AGCAGCATCTACAGCA-
droFic1	scf7180000453829:1092953-1093131 +		AACAAGC-CC------TTCAACTTGGCGCAGTTGATCAAG----------------CAG---------CAGCA------------------------GCAGCA---------ACGG-CAG-------------CAACTGCAGCAGCAGC------------AACTG-------------------------------------------------CAGCAGCAACAACAGC-----------------------------A---GCAGCAACAACAGCAGCAACAACAGCAGC---AGCAACAGCAACAGC---A---GCAACTACA---------------ACAACAACAGCAGCAAC---AGCAGCAGCAACAACA-
droEle1	scf7180000491001:1403851-1404010 +		AGCAACA-TTCGCC-TCACTCTTTGGTGAGGGTGAAGAAGGAGCCGAATGTTGGT-CAG---------CGTCA------------------------CTTGTC---------GCCG-CAT----------------------------C------------ACCCG-------------------------------------------------CAACAGTCGCCCCACC--------------------------TGCAGCACCACCAGCAGCAGC---------------------AGCA------------------GCAGCA---------------GCAACAGCAACAACAGC---AGCAGCAACAACAGCA-
droRho1	scf7180000773422:51670-51835 +		GGCAGCA-CC-------ATGCTGTGGAAACG------ATAGAACAG----------AAG---------CAGCA------------------------A-AAGCA--------ACGC-CAC-CATCCCCAGCAG------CAGCAGCAAC------------ATCAG-------------------------------------------------CAG-----------------------------------------CA---GCGGCAACATCAGCA------GCATAACC---CACAGCAG---CAACATCA---TTTGCAGCA---------------GCAACATCATATACAGC---AGCAACAGCAACTACA-
droBia1	scf7180000302041:134646-134823 +		AGCAACA-CGAGCA-ACAGCAAC----------------------------------AG---------CAGCA------------------------ATTGCA---------GCAG-----------------------------CAAC------------AACCGCAG------------------CCACCGCATAACGAGC----AACACCATCAGCAGCATCAGCAAC--------------------------TGCGACATCTGCAGCAGCAGCA------ACAACTGC---AACAACAGCAGCAAC---T---GCAGCAGCA---------------GCAGCAACTGGTGCAAC---AGCAACAAGTGCAGCA-
droTak1	scf7180000415141:5900-6082 -		CACAGCA-TTC-----CTCGATCTGGAGCACACGCTCC---------A-------GCAGCAACAGATGCAG--------------------------------------------------------------CAGATGCAGCTGCAGC------------AGCAGCAG----------------------------------------------CAGCAGCAACACCAGCAGCAACAGCAGA-----C---GCACCAGCAG------------CAGCA------GCAACTAA---GCCAGCAGCAGCTGC---A---GCAGCAACA---------------GCAGCAACTGACGCAGC---AGCAGCAGCTGCAGCA-
droEug1	scf7180000409672:1853449-1853630 -		CGCAACA-GCAGCA-GCAACAGT-----------------------------------------------TCA------------------------GCTACC---------ACAG-CAA----------------------------C------------AACAG------CAATAACAACTACTACCACAGCAATGCCAGCAAGCA--------GGCAG---------------CACACGCCAGCAACATAT------------ATCAACAGCAGC---------AGCAGC---AACAGCAA---CAGC---AACATCATCAACA---------------GCAGCAACATCTGCAGCAGCAACATGCGCAACAGCAA
dm3	chrX:1893184-1893352 +		AGCAACA-CTCGCC-CCACTCCCTGGTGCGGGTGAAAAAGGAACCGAATGTTGGT-CAG---------CGGCA------------------------CTTATC---------GCCG-CAT----------------------------C------------ACCAA-------------------------------------------------CAACAGTCGCCACTCC--------------------------TGCAGCACCACCAACAGCAGC------------------------AGCAGCAGC---A---ACAACAACA---------------GCAACAGCATCTGCATC---AGCAACAGCAACAGCA-
droSim2	x:1735119-1735290 +		AGCAACA-CTCGCC-CCACTCCCTGGTGCGGGTGAAAAAGGAACCGAATGTTGGT-CAG---------CGGCA------------------------CTTGTC---------GCCG-CAT----------------------------C------------ACCAG-------------------------------------------------CAACAGTCGCCGCTCC--------------------------TGCAGCACCACCAACAGCAGC---------------------AGCAG---CAGCAACA---ACAACAGCA---------------GCAGCAGCATCTGCATC---AGCAACAGCAACAGCA-
droSec2	scaffold_10:1678651-1678817 +		AGCAACA-CTCGCC-CCACTCCCTGGTGCGGGTGAAAAAGGAACCGAATGTTGGT-CAG---------CGGCA------------------------CTTGTC---------GCCG-CAT----------------------------C------------ACCAG-------------------------------------------------CAACAGTCGCCGCTCC--------------------------TGCAGCACCACCAACAGCAGC---------------------AGCAG---CAGCAACA---ACAACAGCA---------------GCAGCAGCATCTGCATC---AGCAA------CAGCAA
droYak3	3R:26866763-26866924 +		CGCTCAG-CCCGCTCACACCCA-------------------------------------------------CACCCA---------------CGGCCA-ACG-CTAGCAATCCCAGTCAT-------------------------CAG-------------------------------------------------------------------CAGCAGCAGCAGCAAC--------------------------AGCAGCATCACAACCAGCAGC---------------------AGCAG---CAGCAACA---ACAGCAGCAGCAGCAGCATCATCCACAGCACCA-CGACAAC---AGCAACAGCAGCAGCA-
droEre2	scaffold_4784:2821672-2821842 -		AGCAACA-T-CGCC-TCGT--CT---AAGTC------CAGTGCC---T-------GCAG---------CAACA------------------------C-TGTT---------GCCG-CAGCA------------------------ATCGCCAAATACCACAACAG-------------------------------------------------CAACAGGCA----ACC--------------------------TGCAGCAGCAGCAGCAGCAGC---------AGTACC---AGCAGCAT---CAGC---AACTTCTGTCGCA---------------GCAGCAACTACTGTCGC---AGCAGCAGCAACAGCA-
dp5	Unknown_group_66:9693-9876 +		GGCAGCC-TACGCC-ACCGGCCGAGGA-----GGAGGAGGGCTCCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAGCAGCAGC------------AGCAGCAGCAGCACCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGCAGCAGCAGCAGCAGCAGCA------GCACCAAC---ATCAGCAGCACCAGC---A---GCAGCAGCA---------------GCAGCAGCAGCAGCAGC---AGCAGCAGCAGCAGCA-
droPer2	scaffold_0:2261954-2262134 +		AGCAATCGTTCGCC-A----ACTTTGCCCCGCCTCCAGTG----------------CAG---------CAGCT------------------------CCAGGC---------ACAG-CCA-------------CAAATGACTTACCTGC----------------------------------------------------------CTCCCCAGCAACAGCAGCAGCAAC--------------------------AGCAGCAGCAACAGCAGCAGC---------AACAGC---AGCAGCAA---CAGC---AGCAGCAACAGCA---------------GCAGCAACAGCAGCAGC---AGCTACAGCAGCAGGA-
droWil2	scf2_1100000004511:5835545-5835722 +		AAGAACA-TCAGCA-ACAGG---------------------AGCAACATGAAGAA-CAA---------CAACA------------------------GTCA----------------CAT-------------------------CAGC------------AGCAGCAGCAGCAACAA-------------------------------------CAGGAGCAACAGCAACAACAACAGT-----------------CGCA---TCATCAGCAGCAGCA------GCAACAAC---AGGAGCAA---CAGC---AGCAGCAACTGCA---------------ACAACAACAGGAGCAAC---AGCAACAGCAACAGCA-
droVir3	scaffold_12932:1650747-1650931 +		TGCGGCG-TGCGCA-CCATGGTCTGGGGCTA-------------CGAG--------CCG---------CCG---------------------CCGCCA-ACGCCCGGC---------CAG-CAGCAGCAGCAG------CAGCAGCAAC------------ATCAG-------------------------------------------------CAACAGCAGCAACACC--------------------------AGCAACACCAGCAGCAGCAGC---------AGCAAC---ATCAACAGCAACAGC---A---ACATCAACA---------------GCAACATCAGCAACATC---AGCAGCAGCAGCAGCA-
droMoj3	scaffold_6473:10898256-10898436 +		CACAGCA-TCAGCA-ACAGCATCAGCAACAG---------------CA-------GCAGCAACAGCAGCAG--------------------------------------------------------------CAGCAGCAACAGCAGC------------AGCAGCAG----------------------------------------------CAGCAGCAACAGCAGCAGCAGCAAC-----------------AGCA---GCAGCAGCAGCAGCA------GCAACAGC---AGCAGCAG---CAGCAGCA---GCAGCAGCA---------------GCAGCAGCAACAGCAGC---AGCAGCAGCAGCAGCA-
droGri2	scaffold_15110:15396643-15396827 +		AGCAACCGTTCGG-------------------------------------------CAG---------CGGCTCTCATGGGTCTTGTGGCAGCCGCCG-AGT-TTGGCTATATGCGTAAT-------------------------CAAC------------ACCAG-------------------------------------------------CAACAGCAACAGCAACAGCAACACACGA-----CCAAG------------CACCAACAGCAGC---------AACAAC---AGTTGCATCTACATC---A---TCATCATCA---------------TCAGCAACAGCAGCAGC---AGCAGCAGCAGCAACA-

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droAna3

AGCAACA-CTCGCC-ACATGCTCTGGTGCGAGTGAAGAAGGAACCGAATGCGGTC-CAG---------AGGCA------------------------TCTATC---------GCCA-CAT-------------------------CACC------------ACCAG-------------------------------------------------CAACAGCAACCACAAC------AGACCA-----C---ACACCTGCAG---------CAGCAGC---------AGCAAC---AGCAACAGCAACAGC---A---GCAGCATCC---------------GCAGCATCATCTGCAGC---AGCAACAGCAACAGCA-	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
....................................................................................................................................................................................................................................................................................................................AGC---A---GCAGCATCC---------------GCAGCA...............................	19	4	0.25	1	0	0	0	0	0	1
..............................................................................................................................................................................................................................................................................................................................................................ATCTGCAGC---AGCAACAGC........	18	7	0.14	1	0	1	0	0	0	0
...................................................................................................................................................................................................................................................................................AGC---------AGCAAC---AGCAACAGCAAC.......................................................................	21	20	0.05	1	0	1	0	0	0	0
..................................................................................................................................................................................................................................................................................................AAC---AGCAACAGCAACAGC---A---GCA..........................................................	22	20	0.05	1	0	1	0	0	0	0
................................................................................................................................................................................................................................................................................AGCAGC---------AGCAAC---AGCAACA............................................................................	19	20	0.05	1	0	1	0	0	0	0
...................................................................................................................................................................................................................................................................CAG---------CAGCAGC---------AGCAAC---AG.................................................................................	18	20	0.05	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................................................................G---------CAGCAGC---------AGCAAC---AGCAACAGC..........................................................................	23	20	0.05	1	0	0	0	0	0	1
....................................................................................................................................................................................................................................................................................GC---------AGCAAC---AGCAACAGCAAC.......................................................................	20	20	0.05	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................................................................................C---------AGCAAC---AGCAACAGCAACAGC---A---GCA..........................................................	26	20	0.05	1	0	1	0	0	0	0
..................................................................................................................................................................................................................................................................................................AAC---AGCAACAGCAACAGC---A---GCAG.........................................................	23	20	0.05	1	1	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................AC---AGCAACAGCAACAGC---A---GC...........................................................	20	20	0.05	1	0	1	0	0	0	0
.............................................................................................................................................................................................................................................................................................................CAGCAACAGC---A---GCAGCATC.....................................................	19	20	0.05	1	0	0	0	0	0	1
.....................................................................................................................................................................................................................................................................................C---------AGCAAC---AGCAACAGCAAC.......................................................................	19	20	0.05	1	0	0	0	0	0	1
.................................................................................................................................................................................................................................................................................................CAAC---AGCAACAGCAACAGC---A---GC...........................................................	22	20	0.05	1	0	1	0	0	0	0
.................................................................................................................................................................................................................................................................................................CAAC---AGCAACAGCAACAGC---A---GCAGC........................................................	25	20	0.05	1	0	1	0	0	0	0

droBip1

AGCAAAA-CTCGCC-GCATGCTCTGGTGCGGGTGAAGAAGGAACCGAATGCGGTC-CAG---------AGGCA------------------------TCTATC---------GCCG-CAT-------------------------CATC------------ACCAG-------------------------------------------------CAACAGCAACCCCAAC------AGACCG-----C---ACACCTGCAA------------CAGC---------AACATC---AGCAGCAGCAGCAGC---A---ACAGCAGCA---------------GCAGCACCACCTGCAGC---AGCAGCAGCAGCAGCA-	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AGCAGCA-TTTACA-GC----------------------------------------------------AGCA------------------------GCAGCA---------ACAG-CAT-------------CTA------------C------------AGCAGCAGCAGCAACAT----------------------------------CACCAGCAGCAACAACAAC---AGCATC-----------------TACAG---CAGCAACAGCAGC---------AGCTGCAGCAACATCTA---CAGC---AGCAACAGCAGCA---------------GCATCATCTACAGCAGC---AGCAGCATCTACAGCA-	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AACAAGC-CC------TTCAACTTGGCGCAGTTGATCAAG----------------CAG---------CAGCA------------------------GCAGCA---------ACGG-CAG-------------CAACTGCAGCAGCAGC------------AACTG-------------------------------------------------CAGCAGCAACAACAGC-----------------------------A---GCAGCAACAACAGCAGCAACAACAGCAGC---AGCAACAGCAACAGC---A---GCAACTACA---------------ACAACAACAGCAGCAAC---AGCAGCAGCAACAACA-	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AGCAACA-TTCGCC-TCACTCTTTGGTGAGGGTGAAGAAGGAGCCGAATGTTGGT-CAG---------CGTCA------------------------CTTGTC---------GCCG-CAT----------------------------C------------ACCCG-------------------------------------------------CAACAGTCGCCCCACC--------------------------TGCAGCACCACCAGCAGCAGC---------------------AGCA------------------GCAGCA---------------GCAACAGCAACAACAGC---AGCAGCAACAACAGCA-	Size	Hit Count	Total Norm	Total
No Reads

droRho1

GGCAGCA-CC-------ATGCTGTGGAAACG------ATAGAACAG----------AAG---------CAGCA------------------------A-AAGCA--------ACGC-CAC-CATCCCCAGCAG------CAGCAGCAAC------------ATCAG-------------------------------------------------CAG-----------------------------------------CA---GCGGCAACATCAGCA------GCATAACC---CACAGCAG---CAACATCA---TTTGCAGCA---------------GCAACATCATATACAGC---AGCAACAGCAACTACA-	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AGCAACA-CGAGCA-ACAGCAAC----------------------------------AG---------CAGCA------------------------ATTGCA---------GCAG-----------------------------CAAC------------AACCGCAG------------------CCACCGCATAACGAGC----AACACCATCAGCAGCATCAGCAAC--------------------------TGCGACATCTGCAGCAGCAGCA------ACAACTGC---AACAACAGCAGCAAC---T---GCAGCAGCA---------------GCAGCAACTGGTGCAAC---AGCAACAAGTGCAGCA-	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CACAGCA-TTC-----CTCGATCTGGAGCACACGCTCC---------A-------GCAGCAACAGATGCAG--------------------------------------------------------------CAGATGCAGCTGCAGC------------AGCAGCAG----------------------------------------------CAGCAGCAACACCAGCAGCAACAGCAGA-----C---GCACCAGCAG------------CAGCA------GCAACTAA---GCCAGCAGCAGCTGC---A---GCAGCAACA---------------GCAGCAACTGACGCAGC---AGCAGCAGCTGCAGCA-	Size	Hit Count	Total Norm	Total
No Reads

droEug1

CGCAACA-GCAGCA-GCAACAGT-----------------------------------------------TCA------------------------GCTACC---------ACAG-CAA----------------------------C------------AACAG------CAATAACAACTACTACCACAGCAATGCCAGCAAGCA--------GGCAG---------------CACACGCCAGCAACATAT------------ATCAACAGCAGC---------AGCAGC---AACAGCAA---CAGC---AACATCATCAACA---------------GCAGCAACATCTGCAGCAGCAACATGCGCAACAGCAA	Size	Hit Count	Total Norm	Total
No Reads

dm3

AGCAACA-CTCGCC-CCACTCCCTGGTGCGGGTGAAAAAGGAACCGAATGTTGGT-CAG---------CGGCA------------------------CTTATC---------GCCG-CAT----------------------------C------------ACCAA-------------------------------------------------CAACAGTCGCCACTCC--------------------------TGCAGCACCACCAACAGCAGC------------------------AGCAGCAGC---A---ACAACAACA---------------GCAACAGCATCTGCATC---AGCAACAGCAACAGCA-	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
....................................................................................................................................................................................................................................................................AGCACCACCAACAGCAGC------------------------AGCAGCAGC---A---.............................................................	28	1	4.00	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................AGCACCACCAACAGCAGC------------------------AGCAGCAGC---C---.............................................................	28	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................GGCA------------------------CTTATC---------GCCG-CAT----------------------------C------------A.........................................................................................................................................................................................................................	19	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.GCAACA-CTCGCC-CCACTCCC....................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................C---------GCCG-CAT----------------------------C------------ACCAA-------------------------------------------------CAACA...............................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
................................TGAAAAAGGAACCGAATGTTGGT-CAG---------C......................................................................................................................................................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
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...........................................................................................................................................................................................................................AGTCGCCACTCC--------------------------TGCAGCACCACC..............................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
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................................................................................................................................................................................................................................................................................AGCAGC------------------------AGCAGCAGC---A---ACAAC........................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.......................................................................................................................................................................................................................................................................ACCACCAACAGCAGC------------------------AGCA.........................................................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................................................................................................................................................................................................................................................AGCAGC---A---ACAACAACA---------------GCA..................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................CAGC------------------------AGCAGCAGC---A---ACAACAACA---------------GC...................................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................GCAGC---A---ACAACAACA---------------GCAAC................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................AGCAGCAGC---A---ACAACAACA---------------.....................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................CCAACAGCAGC------------------------AGCAGCAGC---.................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
............................................................................................................................................................................................................................................................................CAACAGCAGC------------------------AGCAGCAGC---A---A............................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droSim2

AGCAACA-CTCGCC-CCACTCCCTGGTGCGGGTGAAAAAGGAACCGAATGTTGGT-CAG---------CGGCA------------------------CTTGTC---------GCCG-CAT----------------------------C------------ACCAG-------------------------------------------------CAACAGTCGCCGCTCC--------------------------TGCAGCACCACCAACAGCAGC---------------------AGCAG---CAGCAACA---ACAACAGCA---------------GCAGCAGCATCTGCATC---AGCAACAGCAACAGCA-	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
.................................................................................................................................................................................................................................................................................................................................ACAGCA---------------GCAGCAGCAT...........................	16	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................AGCAACA---ACAACAGCA---------------GCAGCAGC.............................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0

droSec2

AGCAACA-CTCGCC-CCACTCCCTGGTGCGGGTGAAAAAGGAACCGAATGTTGGT-CAG---------CGGCA------------------------CTTGTC---------GCCG-CAT----------------------------C------------ACCAG-------------------------------------------------CAACAGTCGCCGCTCC--------------------------TGCAGCACCACCAACAGCAGC---------------------AGCAG---CAGCAACA---ACAACAGCA---------------GCAGCAGCATCTGCATC---AGCAA------CAGCAA	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
......................................................................................................................................................................................................................................................................................................................CAACA---ACAACAGCA---------------GCAGCAG..............................	21	20	0.10	2	0	0	0	2
......................................................................................................................................................................................................................................................................................................................CAACA---ACAACAGCA---------------GCAGCAGC.............................	22	20	0.10	2	0	0	2	0
.....................................................................................................................................................................................................................................................................................C---------------------AGCAG---CAGCAACA---ACAAC........................................................	19	20	0.05	1	0	0	1	0
......................................................................................................................................................................................................................................................................................................................CAACA---ACAACAGCA---------------GCAGCAGCA............................	23	20	0.05	1	0	0	1	0
.......................................................................................................................................................................................................................................................................................................................AACA---ACAACAGCA---------------GCAGCAGC.............................	21	20	0.05	1	0	0	1	0

droYak3

CGCTCAG-CCCGCTCACACCCA-------------------------------------------------CACCCA---------------CGGCCA-ACG-CTAGCAATCCCAGTCAT-------------------------CAG-------------------------------------------------------------------CAGCAGCAGCAGCAAC--------------------------AGCAGCATCACAACCAGCAGC---------------------AGCAG---CAGCAACA---ACAGCAGCAGCAGCAGCATCATCCACAGCACCA-CGACAAC---AGCAACAGCAGCAGCA-	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
.............................................................................................................ATCCCAGTCAT-------------------------CAG-------------------------------------------------------------------CAGCAGC.............................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.....AG-CCCGCTCACACCCA-------------------------------------------------CACC................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................................................CCACAGCACCA-CGACAAC---AGCAACAGC........	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.....................................................................................................G-CTAGCAATCCCAGTCAT-------------------------CAG-------------------------------------------------------------------CAGCA...............................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................AGCATCACAACCAGCAGC---------------------AGCAG---C.......................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................CCA-ACG-CTAGCAATCCCAGTC.....................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................GCAGCATCACAACCAGCAGC---------------------................................................................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................GCATCATCCACAGCACCA-CGACAAC---AGC..............	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................CATCACAACCAGCAGC---------------------AGCAG---CAGC....................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................GACAAC---AGCAACAGCAGCAG...	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................AAC--------------------------AGCAGCATCACAACCAG.........................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................AGCATCACAACCAGCAGC---------------------AGCA............................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................A---ACAGCAGCAGCAGCAGCATCAT.......................................	23	2	0.50	1	0	0	1	0	0	0	0	0	0	0	0
..................................................................................................................AGTCAT-------------------------CAG-------------------------------------------------------------------CAGCAGCAGCAGC.......................................................................................................................................................	22	2	0.50	1	0	0	0	0	0	0	1	0	0	0	0
............................................................................................................................................................................................................................................................................AACCAGCAGC---------------------AGCAG---CAGCAAC.................................................................	22	4	0.25	1	0	1	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................CAACA---ACAGCAGCAGCAGCAGCAT..........................................	24	6	0.17	1	0	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................G---CAGCAACA---ACAGCAGCAGCAGC...............................................	23	20	0.15	3	0	3	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................AGCAGCAGCAGCAAC--------------------------AGCAGCAT..................................................................................................................	23	10	0.10	1	0	0	0	0	0	0	1	0	0	0	0
......................................................................................................................AT-------------------------CAG-------------------------------------------------------------------CAGCAGCAGCAGCAAC--------------------------AGC.......................................................................................................................	24	15	0.07	1	0	1	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................GC---------------------AGCAG---CAGCAACA---ACAGC........................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CAGCAGC---------------------AGCAG---CAGCAACA---ACAGCAGC.....................................................	28	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................GCAGC---------------------AGCAG---CAGCAACA---ACAGC........................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................CA---ACAGCAGCAGCAGCAGCA...........................................	20	20	0.05	1	0	0	0	0	0	1	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................................AGCAACA---ACAGCAGCAGCAGC...............................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CAGCAGC---------------------AGCAG---CAGCAACA---ACAGCA.......................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................G---CAGCAACA---ACAGCAGCAGCAGCAGC............................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................GCAGC---------------------AGCAG---CAGCAACA---ACA..........................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0

droEre2

AGCAACA-T-CGCC-TCGT--CT---AAGTC------CAGTGCC---T-------GCAG---------CAACA------------------------C-TGTT---------GCCG-CAGCA------------------------ATCGCCAAATACCACAACAG-------------------------------------------------CAACAGGCA----ACC--------------------------TGCAGCAGCAGCAGCAGCAGC---------AGTACC---AGCAGCAT---CAGC---AACTTCTGTCGCA---------------GCAGCAACTACTGTCGC---AGCAGCAGCAACAGCA-	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.........................................................................................................................................................................................................................ACAGGCA----ACC--------------------------TGCAGCAGCAGCAGC...........................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................AGCAACTACTGTCGC---AGCAGCAGC........	24	1	1.00	1	0	0	0	1	0	0	0
................................................................................................................................................................CAACAG-------------------------------------------------CAACAGGCA----ACC--------------------------TG........................................................................................................................	20	1	1.00	1	1	0	0	0	0	0	0
..................................................................................................................................................ATCGCCAAATACCACAACAG-------------------------------------------------CAACAGG.............................................................................................................................................................	27	1	1.00	1	1	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................AGCAACTACTGTCGC---AGCAGC...........	21	1	1.00	1	0	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................AGCAGCAGCAGC---------AGTACC---AGC................................................................................	21	3	0.67	2	1	0	0	0	0	1	0

dp5

GGCAGCC-TACGCC-ACCGGCCGAGGA-----GGAGGAGGGCTCCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAGCAGCAGC------------AGCAGCAGCAGCACCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGCAGCAGCAGCAGCAGCAGCA------GCACCAAC---ATCAGCAGCACCAGC---A---GCAGCAGCA---------------GCAGCAGCAGCAGCAGC---AGCAGCAGCAGCAGCA-	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
..CAGCC-TACGCC-ACCGGCCGAGGA-----...........................................................................................................................................................................................................................................................................................................................................................	23	15	5.07	76	0	76	0	0	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCGAGG.................................................................................................................................................................................................................................................................................................................................................................	22	15	4.73	71	0	70	1	0	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCGAGGA-----G..........................................................................................................................................................................................................................................................................................................................................................	24	8	1.38	11	0	10	0	0	0	0	1	0	0	0
.........................................................................................................................................................................................................................................................................................................TCAGCAGCACCAGC---A---GCAGCAG......................................................	22	10	1.30	13	0	6	0	0	0	0	0	7	0	0
..CAGCC-TACGCC-ACCGGCCGAG..................................................................................................................................................................................................................................................................................................................................................................	21	15	1.13	17	0	17	0	0	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCGAGGA-----GG.........................................................................................................................................................................................................................................................................................................................................................	25	8	0.88	7	0	6	0	1	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCGAGGA-----GGA........................................................................................................................................................................................................................................................................................................................................................	26	8	0.63	5	0	5	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................ACCAAC---ATCAGCAGCACCAGC---A---.............................................................	22	2	0.50	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................CCAAC---ATCAGCAGCACCAGC---A---GC...........................................................	23	2	0.50	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................ACCAAC---ATCAGCAGCACCAGC---A---GCA..........................................................	25	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCGAGGA-----GT.........................................................................................................................................................................................................................................................................................................................................................	25	8	0.38	3	0	3	0	0	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCGA...................................................................................................................................................................................................................................................................................................................................................................	20	15	0.33	5	0	5	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................TCAGCAGCACCAGC---A---GCAGCAGC.....................................................	23	10	0.30	3	0	3	0	0	0	0	0	0	0	0
.............................................................................................................................................................................ACCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------..........................................................................................................................	21	15	0.27	4	0	1	0	1	2	0	0	0	0	0
.............................................................................................................................................................................ACCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AG........................................................................................................................	23	15	0.27	4	0	4	0	0	0	0	0	0	0	0
..........................................TCCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAGCAGC.........................................................................................................................................................................................................................................	25	9	0.22	2	0	1	0	1	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................TCAGCAGCACCAGC---A---GCAGCAGCA---------------G....................................	25	9	0.22	2	0	1	0	0	0	0	0	1	0	0
..........................................TCCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAG.............................................................................................................................................................................................................................................	21	9	0.22	2	0	1	0	0	0	0	0	0	1	0
...........................................CCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAGC............................................................................................................................................................................................................................................	21	9	0.22	2	0	0	0	0	0	0	0	2	0	0
...AGCC-TACGCC-ACCGGCCGAG..................................................................................................................................................................................................................................................................................................................................................................	20	15	0.20	3	0	3	0	0	0	0	0	0	0	0
...AGCC-TACGCC-ACCGGCCGAGGA-----...........................................................................................................................................................................................................................................................................................................................................................	22	15	0.20	3	0	3	0	0	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCG....................................................................................................................................................................................................................................................................................................................................................................	19	15	0.20	3	0	3	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................TCAGCAGCACCAGC---A---GCAGCAGCA---------------.....................................	24	10	0.20	2	0	1	0	0	1	0	0	0	0	0
.............................................................................................................................................................................ACCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGCAG.....................................................................................................................	26	11	0.18	2	0	2	0	0	0	0	0	0	0	0
................................................................................................................................................................................AA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGCAG.....................................................................................................................	23	11	0.18	2	0	2	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................TCAGCAGCACCAGC---A---GCAGCA.......................................................	21	12	0.17	2	0	2	0	0	0	0	0	0	0	0
.............................................................................................................................................................................ACCAA-------------------------------------CATCAGCAGCCGCAG.....................................................................................................................................................	20	15	0.13	2	0	2	0	0	0	0	0	0	0	0
...AGCC-TACGCC-ACCGGCCGAGG.................................................................................................................................................................................................................................................................................................................................................................	21	15	0.13	2	0	2	0	0	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCGAGGA-----GGT........................................................................................................................................................................................................................................................................................................................................................	26	8	0.13	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................C---ATCAGCAGCACCAGC---A---GCAGC........................................................	22	8	0.13	1	0	1	0	0	0	0	0	0	0	0
...AGCC-TACGCC-ACCGGCCGAGGA-----GG.........................................................................................................................................................................................................................................................................................................................................................	24	8	0.13	1	0	1	0	0	0	0	0	0	0	0
...AGCC-TACGCC-ACCGGCCGAGGA-----G..........................................................................................................................................................................................................................................................................................................................................................	23	8	0.13	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................ATCAGCAGCACCAGC---A---GCAGCAGC.....................................................	24	8	0.13	1	0	1	0	0	0	0	0	0	0	0
..........................................TCCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAGCAGCAG.......................................................................................................................................................................................................................................	27	9	0.11	1	0	1	0	0	0	0	0	0	0	0
..........................................TCCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAGCAGCA........................................................................................................................................................................................................................................	26	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.....................................AGGGCTCCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAG................................................................................................................................................................................................................................................	23	9	0.11	1	0	0	0	0	0	0	0	1	0	0
.....................................AGGGCTCCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGC...............................................................................................................................................................................................................................................	24	9	0.11	1	0	0	0	0	0	0	0	1	0	0
......C-TACGCC-ACCGGCCGAGGA-----G..........................................................................................................................................................................................................................................................................................................................................................	20	9	0.11	1	0	1	0	0	0	0	0	0	0	0
....GCC-TACGCC-ACCGGCCGAGGA-----GGA........................................................................................................................................................................................................................................................................................................................................................	24	9	0.11	1	0	1	0	0	0	0	0	0	0	0
...........................................CCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAGCAG..........................................................................................................................................................................................................................................	23	9	0.11	1	0	0	0	0	0	0	0	1	0	0
....GCC-TACGCC-ACCGGCCGAGGA-----G..........................................................................................................................................................................................................................................................................................................................................................	22	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.....................................AGGGCTCCGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCA..............................................................................................................................................................................................................................................	25	9	0.11	1	0	0	0	0	0	0	0	1	0	0
.....................................................................................................................................CAGCAGCAGCAGCAGC------------AGC.......................................................................................................................................................................................................................	19	20	0.10	2	0	2	0	0	0	0	0	0	0	0
...........................................................................................................................................CAGCAGCAGC------------AGCAGCAG..................................................................................................................................................................................................................	18	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................CA---------------GCAGCAGCAGCAGCAG.....................	18	20	0.10	2	0	2	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................CAGCAGCA---------------GCAGCAGCAGCAG........................	21	20	0.10	2	0	2	0	0	0	0	0	0	0	0
................................................................................................................................................................................AA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGCAGCAGC.................................................................................................................	27	11	0.09	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................AA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGCAGCAG..................................................................................................................	26	11	0.09	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................ACCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGCAGC....................................................................................................................	27	11	0.09	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................ACCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGCA......................................................................................................................	25	13	0.08	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................AA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGCA......................................................................................................................	22	13	0.08	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................CCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGCA......................................................................................................................	24	13	0.08	1	0	1	0	0	0	0	0	0	0	0
............................................CGAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAGCAGC.........................................................................................................................................................................................................................................	23	14	0.07	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................TCAGCAGCACCAGC---A---GCAG.........................................................	19	14	0.07	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................CAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AG........................................................................................................................	21	15	0.07	1	0	0	0	0	0	0	0	1	0	0
..CAGCC-TACGCC-ACCGGCCGAGGA-----A..........................................................................................................................................................................................................................................................................................................................................................	24	15	0.07	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................CACCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------A.........................................................................................................................	23	15	0.07	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................ACCAA-------------------------------------CATCAGCAGCCGCA......................................................................................................................................................	19	15	0.07	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................................................................................................ACCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------A.........................................................................................................................	22	15	0.07	1	0	1	0	0	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCGAC..................................................................................................................................................................................................................................................................................................................................................................	21	15	0.07	1	0	1	0	0	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCGAGC.................................................................................................................................................................................................................................................................................................................................................................	22	15	0.07	1	0	0	1	0	0	0	0	0	0	0
................................................................................................................................................................................AA-------------------------------------CATCAGCAGCCGCAGC--------------------------AG........................................................................................................................	20	15	0.07	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................ATCAGCAGCCGCAGC--------------------------AGCAG.....................................................................................................................	20	15	0.07	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................CCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------A.........................................................................................................................	21	15	0.07	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................CACCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AG........................................................................................................................	24	15	0.07	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................CACCAA-------------------------------------CATCAGCAGCCGCA......................................................................................................................................................	20	15	0.07	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................CCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AGC.......................................................................................................................	23	15	0.07	1	0	0	1	0	0	0	0	0	0	0
..CAGCC-TACGCC-ACCGGCCGC...................................................................................................................................................................................................................................................................................................................................................................	20	15	0.07	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................CCAA-------------------------------------CATCAGCAGCCGCAGC--------------------------AG........................................................................................................................	22	15	0.07	1	0	1	0	0	0	0	0	0	0	0
...AGCC-TACGCC-ACCGGCCGA...................................................................................................................................................................................................................................................................................................................................................................	19	15	0.07	1	0	1	0	0	0	0	0	0	0	0
.....CC-TACGCC-ACCGGCCGAG..................................................................................................................................................................................................................................................................................................................................................................	18	16	0.06	1	0	1	0	0	0	0	0	0	0	0
....GCC-TACGCC-ACCGGCCGAGGA-----...........................................................................................................................................................................................................................................................................................................................................................	21	16	0.06	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................C---ATCAGCAGCACCAGC---A---GC...........................................................	19	16	0.06	1	0	1	0	0	0	0	0	0	0	0
....GCC-TACGCC-ACCGGCCGAGG.................................................................................................................................................................................................................................................................................................................................................................	20	16	0.06	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................ATCAGCAGCACCAGC---A---GCA..........................................................	19	17	0.06	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................CAA-------------------------------------CATCAGCAGCCGCAG.....................................................................................................................................................	18	17	0.06	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................GCAGCAGCAGCA------GCACCAAC---ATC................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................GC------------AGCAGCAGCAGCACCAA-------------------------------------CATC................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................CAGCAGCACCAGC---A---GCAGCAGCA---------------.....................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................AGCAGCAGCAGCAGCAGCAGCA------..............................................................................................	22	20	0.05	1	0	0	0	0	0	1	0	0	0	0
.............................................GAGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAGCAG..........................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................CAGCAGCA---------------GCAGCAGCAGCAGCAGC---A................	26	20	0.05	1	0	0	0	0	1	0	0	0	0	0
...................................................................................................................................................................CAGCAGCAGCACCAA-------------------------------------CATCAGCAG...........................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CAGCAGCA------GCACCAAC---ATCAGCAG...........................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................AGAAG-----------------CAG--------------------------------------------------------------CAGCAGCAGCA...........................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	1	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................AGCA---------------GCAGCAGCAGCAGCAGC---.................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0
......................................................................G--------------------------------------------------------------CAGCAGCAGCAGCAGC------------AGCAGCA...................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................GCAGCAGCA---------------GCAGCAGCAGCAGCA......................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................AGCAGCAGC------------AGCAGCAGCAGC..............................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................GCAGCAGCAGCAGCA------GCA...........................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................CAGCAGCCGCAGC--------------------------AGCAGCA...................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................................................CAGCAGCAGCAGC------------AGCAGCAGCAGCA.............................................................................................................................................................................................................	26	20	0.05	1	0	0	0	0	1	0	0	0	0	0

droPer2

AGCAATCGTTCGCC-A----ACTTTGCCCCGCCTCCAGTG----------------CAG---------CAGCT------------------------CCAGGC---------ACAG-CCA-------------CAAATGACTTACCTGC----------------------------------------------------------CTCCCCAGCAACAGCAGCAGCAAC--------------------------AGCAGCAGCAACAGCAGCAGC---------AACAGC---AGCAGCAA---CAGC---AGCAGCAACAGCA---------------GCAGCAACAGCAGCAGC---AGCTACAGCAGCAGGA-	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
...............................................................................................................................................................................................................................................................................................................A---CAGC---AGCAGCAACAGCA---------------GCA..................................	21	20	0.05	1	0	0	1	0	0	0
.................................................................................................................................................................................................................................................................................................................................ACAGCA---------------GCAGCAACAGCAGCA......................	21	20	0.05	1	0	0	1	0	0	0
.....................................................................................................................................................................................................................................................................GCAGCAACAGCAGCAGC---------AACAGC---AGCA...............................................................................	27	20	0.05	1	0	0	1	0	0	0
.........................................................................................................................................................................................................................................................................................................GCAGCAA---CAGC---AGCAGCAACAGCA---------------GCA..................................	27	20	0.05	1	0	0	1	0	0	0
...............................................................................................................................................................................................................................GCAGCAAC--------------------------AGCAGCAGCAACAGCAGCA.......................................................................................................	27	20	0.05	1	0	0	1	0	0	0
.................................................................................................................................................................................................................................................................................GCAGC---------AACAGC---AGCAGCAA---CAGC---AGCA.............................................................	27	20	0.05	1	0	0	1	0	0	0
...........................................................................................................................................................................................................................................................................................................................GCAGCAACAGCA---------------GCAGCAACAGCAGCA......................	27	20	0.05	1	0	0	1	0	0	0

droWil2

AAGAACA-TCAGCA-ACAGG---------------------AGCAACATGAAGAA-CAA---------CAACA------------------------GTCA----------------CAT-------------------------CAGC------------AGCAGCAGCAGCAACAA-------------------------------------CAGGAGCAACAGCAACAACAACAGT-----------------CGCA---TCATCAGCAGCAGCA------GCAACAAC---AGGAGCAA---CAGC---AGCAGCAACTGCA---------------ACAACAACAGGAGCAAC---AGCAACAGCAACAGCA-	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
...............................................................................................................................................................................................................................................................................CAGCAGCA------GCAACAAC---AGGAGC.............................................................................	22	4	0.25	1	0	0	0	1	0
...................................................................................................................................................................CAGCAGCAGCAACAA-------------------------------------CAGGAGC.............................................................................................................................................................	22	4	0.25	1	0	0	0	1	0
....................................................................................................................................................................AGCAGCAGCAACAA-------------------------------------CAGGAGC.............................................................................................................................................................	21	4	0.25	1	0	0	0	1	0
................................................................................................................................................................................................................................................................................AGCAGCA------GCAACAAC---AGGAGC.............................................................................	21	4	0.25	1	0	0	0	1	0
.........................................................................................................................................................................................................................................................................................................................................................ACAACAGGAGCAAC---AGCAACA..........	21	6	0.17	1	0	0	0	1	0
....................................................................................................................................................................................................................................................................................GCA------GCAACAAC---AGGAGCAA---C.......................................................................	20	6	0.17	1	0	0	0	1	0
..............................................................................................................................................................................ACAA-------------------------------------CAGGAGCAACAGCAACA...................................................................................................................................................	21	6	0.17	1	0	0	0	1	0
.............................................................................................................................................................................................................................................................................................GCAACAAC---AGGAGCAA---CAG.....................................................................	19	6	0.17	1	0	0	0	1	0
...........................................................................................................................................................................GCAACAA-------------------------------------CAGGAGCAACAG........................................................................................................................................................	19	6	0.17	1	0	0	0	1	0
........................................................................................................................................................................GCAGCAACAA-------------------------------------CAGGAGCAAC..........................................................................................................................................................	20	6	0.17	1	0	0	0	1	0
........................................................................................................................................................................................................................................................................................................AGGAGCAA---CAGC---AGCAGCA..........................................................	19	20	0.10	2	0	0	0	2	0
.........................................................................................................................................................................................................................GGAGCAACAGCAACAACAA...............................................................................................................................................	19	10	0.10	1	0	0	0	1	0
...................................................................................................................................................................................................................................................................CA---TCATCAGCAGCAGCA------GCAACAAC---...................................................................................	25	11	0.09	1	0	0	0	1	0
...................................................................................................CA----------------CAT-------------------------CAGC------------AGCAGCAGCAGC..............................................................................................................................................................................................................	21	12	0.08	1	0	0	0	1	0
.................................................................................................................................................................AGCAGCAGCAGCAACAA-------------------------------------CA..................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1

droVir3

TGCGGCG-TGCGCA-CCATGGTCTGGGGCTA-------------CGAG--------CCG---------CCG---------------------CCGCCA-ACGCCCGGC---------CAG-CAGCAGCAGCAG------CAGCAGCAAC------------ATCAG-------------------------------------------------CAACAGCAGCAACACC--------------------------AGCAACACCAGCAGCAGCAGC---------AGCAAC---ATCAACAGCAACAGC---A---ACATCAACA---------------GCAACATCAGCAACATC---AGCAGCAGCAGCAGCA-	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
....................................................................................................CGCCCGGC---------CAG-CAGCAGCA..........................................................................................................................................................................................................................................................	19	2	3.00	6	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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	2	0	1	0	2	0	0	0	0
...........GCA-CCATGGTCTGGGGCTA-------------CGAG--------C..................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0
..................................................................................................................................................................................................................................ACACC--------------------------AGCAACACCAGCAGCAGC........................................................................................................	23	2	0.50	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
.............................................................................................................................................................................................................................................................................................................................................................CAGCAACATC---AGCAGCAGCAGC.....	22	20	0.40	8	1	0	5	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	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
...........................................................................................................................................................................................................................................................................................................AACAGCAACAGC---A---ACATCAACA---------------GCA..................................	25	3	0.33	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................CATCAACA---------------GCAACATCAGCA.........................	20	3	0.33	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	1	0
.............................................................................................................................................................................................................................................................................................................................................................CAGCAACATC---AGCAGCAGCAG......	21	20	0.25	5	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	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0
.....................................................................................................................................................................................................................................................................................................................GC---A---ACATCAACA---------------GCAACATCA............................	21	4	0.25	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	1	0
........................................................................................................................................................................................................................................................................................................................................................AACATCAGCAACATC---AGCAGCAGC........	24	5	0.20	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
...................................................................................................................................................................................................................................................................................................................................AACA---------------GCAACATCAGCAACATC---AG...............	23	6	0.17	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
..............................................................................................................................................................................................................................................................................................................AGCAACAGC---A---ACATCAACA---------------GCA..................................	22	9	0.11	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................................................................................................................................................................................................................................................AACAGC---A---ACATCAACA---------------GCAACA...............................	22	11	0.09	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................CAACAGC---A---ACATCAACA---------------GCAAC................................	22	12	0.08	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................AACAGC---A---ACATCAACA---------------GCAAC................................	21	12	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
.............................................................................................................................................GCAGCAAC------------ATCAG-------------------------------------------------CAACAGCA............................................................................................................................................................	21	12	0.08	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	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
...............................................................................................................................................AGCAAC------------ATCAG-------------------------------------------------CAACAGCAGC..........................................................................................................................................................	21	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
..................................................................................................................................................................................................................................................................................................................ACAGC---A---ACATCAACA---------------GCAAC................................	20	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
.............................................................................................................................................................................................................................................................................AGCAGCAGC---------AGCAAC---ATCAAC.............................................................................	21	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
....................................................................................................................................G------CAGCAGCAAC------------ATCAG-------------------------------------------------CAAC................................................................................................................................................................	20	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
................................................................................................................................................GCAAC------------ATCAG-------------------------------------------------CAACAGCAGC..........................................................................................................................................................	20	16	0.06	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................GC---------CAG-CAGCAGCAGCAG------CAGC............................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................ACACCAGCAGCAGCAGC---------AGC.........................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.......................................................................................................................................................................................................................................................................ACCAGCAGCAGCAGC---------AGCA........................................................................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................CCAGCAGCAGCAGC---------AGCAAC---...................................................................................	20	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................CAGCAACATC---AGCAGCAGCAGT.....	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................................AACAGC---A---ACATCAACA---------------GCA..................................	19	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................CAACATC---AGCAGCAGCAGCA....	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
....................................................................................................................................................................................................................................................................................................................AGC---A---ACATCAACA---------------GCAACA...............................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................CAAC---ATCAACAGCAACAGC---.................................................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................AGCAACATC---AGCAGCAGCAGC.....	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................................................................................................................................................AGCAAC---ATCAACAGCAACA......................................................................	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................AGCAGCAGC---------AGCAAC---ATCA...............................................................................	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	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
...................................................................................................................................................................................................................................................................................................................................................................CATC---AGCAGCAGCAGCAGC..	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	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
.................................................................................................................................................................................................................................................................................................................................................................AACATC---AGCAGCAGCAGCA....	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
.......................................................................................................................G-CAGCAGCAGCAG------CAGCAGCAA.......................................................................................................................................................................................................................................	22	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................CAGCAGCAGCAG------CAGCAGCA........................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...................................................................................................................................................................................................................................................................CAACACCAGCAGCAGCAGC---------............................................................................................	19	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
.................................................................................................................................................................................................................................................................................................................................................................AACATC---AGCAGCAGCAGCAG...	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................CAGCAGCAGCAGC---------AGCAAC---...................................................................................	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	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
..............................................................................................................................................................................................................................................................................................................AGCAACAGC---A---ACATCAACA---------------.....................................	19	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................GCAACACCAGCAGCAGCAGC---------............................................................................................	20	20	0.05	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................ACACCAGCAGCAGCAGC---------AGCA........................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droMoj3

CACAGCA-TCAGCA-ACAGCATCAGCAACAG---------------CA-------GCAGCAACAGCAGCAG--------------------------------------------------------------CAGCAGCAACAGCAGC------------AGCAGCAG----------------------------------------------CAGCAGCAACAGCAGCAGCAGCAAC-----------------AGCA---GCAGCAGCAGCAGCA------GCAACAGC---AGCAGCAG---CAGCAGCA---GCAGCAGCA---------------GCAGCAGCAACAGCAGC---AGCAGCAGCAGCAGCA-	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
............................................................................................................................................................................................................................................................................CAGCAGCAGCA------GCAACAGC---...................................................................................	19	20	0.20	4	0	2	0	0	2	0
............................................................................................................................................................................................................................................................................................................GCAG---CAGCAGCA---GCAGCAGCA---------------GCA..................................	24	20	0.15	3	3	0	0	0	0	0
................................................................GCAGCAG--------------------------------------------------------------CAGCAGCAACAGC.........................................................................................................................................................................................................................................	20	20	0.10	2	2	0	0	0	0	0
.............................................................ACAGCAGCAG--------------------------------------------------------------CAGCAGCAACA...........................................................................................................................................................................................................................................	21	20	0.10	2	0	0	0	0	2	0
.............................................................ACAGCAGCAG--------------------------------------------------------------CAGCAGCAACAGCA........................................................................................................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
................................................................GCAGCAG--------------------------------------------------------------CAGCAGCAACAGCA........................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0
...........................................................................................................................................CAACAGCAGC------------AGCAGCAG----------------------------------------------CAGCAG..............................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................GCAACAGC---AGCAGCAG---CAGCAGCA---.............................................................	24	20	0.05	1	1	0	0	0	0	0
........................................................CAGCAACAGCAGCAG--------------------------------------------------------------CAGCAGCAACA...........................................................................................................................................................................................................................................	26	20	0.05	1	0	0	0	0	1	0
..............................................................................................................................................................................................................................................................................................CAACAGC---AGCAGCAG---CAGC....................................................................	19	20	0.05	1	0	0	0	0	1	0
....................................................................................................................................................................................................................................................................................GCA------GCAACAGC---AGCAGCAG---CAGCAGC.................................................................	26	20	0.05	1	0	0	0	0	1	0
....................ATCAGCAACAG---------------CA-------GCAGCA..............................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	1	0
...........................................................................................................................................................................................................................................GCAAC-----------------AGCA---GCAGCAGCAGCAGCA------..............................................................................................	24	20	0.05	1	1	0	0	0	0	0
.....................................................................................................................................................................GCAG----------------------------------------------CAGCAGCAACAGCAGCAGCA................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0
........................................................................................................................................................................................................................................................................GCAGCAGCAGCAGCA------GCAACAGC---AGCA...............................................................................	27	20	0.05	1	1	0	0	0	0	0
.......................................................................................................................................................................................................................................AGCAGCAAC-----------------AGCA---GCAGCAGCA..........................................................................................................	22	20	0.05	1	1	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................GCAGCAACAGCAGC---AGCAGCAGCAGC.....	26	20	0.05	1	0	0	0	0	1	0
....................................................................................................................................................................................................................................................................A---GCAGCAGCAGCAGCA------GCAACAGC---...................................................................................	24	20	0.05	1	0	0	0	0	1	0
............CA-ACAGCATCAGCAACAG---------------C............................................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
.......................................................GCAGCAACAGCAGCAG--------------------------------------------------------------CAG...................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................CA---------------GCAGCAGCAACAGCAGC---AGCAGCA..........	26	20	0.05	1	1	0	0	0	0	0
..........................................................................................................................................GCAACAGCAGC------------AGCAGCAG----------------------------------------------CAGCA...............................................................................................................................................................	24	20	0.05	1	1	0	0	0	0	0
..................................................................................................................................................AGC------------AGCAGCAG----------------------------------------------CAGCAGCAACAGC.......................................................................................................................................................	24	20	0.05	1	0	0	0	0	1	0
..........................................................................................................................................................................................................................................................................................................................A---GCAGCAGCA---------------GCAGCAGCAACAG........................	23	20	0.05	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................A---GCAGCAGCA---------------GCAGCAGCAACAGC.......................	24	20	0.05	1	1	0	0	0	0	0
...................................................................................................................................................GC------------AGCAGCAG----------------------------------------------CAGCAGCAACAGCAGCA...................................................................................................................................................	27	20	0.05	1	1	0	0	0	0	0
...................CATCAGCAACAG---------------CA-------GCAGC...............................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	1	0	0	0	0	0
............................................................................................................................................................................................................................................CAAC-----------------AGCA---GCAGCAGCAGCAGCA------G.............................................................................................	24	20	0.05	1	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................CAACAGC---AGCAGCAG---CAGCAGCA---G............................................................	24	20	0.05	1	1	0	0	0	0	0
..............................................CA-------GCAGCAACAGCAGCAG--------------------------------------------------------------CAGC..................................................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0

droGri2

AGCAACCGTTCGG-------------------------------------------CAG---------CGGCTCTCATGGGTCTTGTGGCAGCCGCCG-AGT-TTGGCTATATGCGTAAT-------------------------CAAC------------ACCAG-------------------------------------------------CAACAGCAACAGCAACAGCAACACACGA-----CCAAG------------CACCAACAGCAGC---------AACAAC---AGTTGCATCTACATC---A---TCATCATCA---------------TCAGCAACAGCAGCAGC---AGCAGCAGCAGCAACA-	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
.....................................................................................................................................................................................................................................................................................................................TC---A---TCATCATCA---------------TCAGCAACA............................	21	12	0.08	1	1	0
...........................................................................................................................................................................................................................................................................................................................................................AACAGCAGCAGC---AGCAGCAGCAGCAAC..	27	20	0.05	1	1	0
........................................................................................................................................................................................................................AACAGCAACAGCAACAGCA................................................................................................................................................	19	20	0.05	1	1	0
..................................................................................................................................................................CCAG-------------------------------------------------CAACAGCAACAGCA......................................................................................................................................................	18	20	0.05	1	1	0

-8.7	-8.6	-8.3	-8.3

dan_807

scaffold_12929:1884783-1884869 +

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