dsi_249

Name	Class	Family	Strand
(CAG)n	Simple_repeat	Simple_repeat	+

TGTTGTTGCTGTTGCTCTTGTCCGTGGGCGTGGCATGGCTAGTTGTTGTCGCTGTCGCTGCTGCTGCTGCTGTGCTCGTTGTTGTTGTTGTTGTGGCAGCGGAAGTTGCTGCTGTTGTTGTGCTAGTTGCTGCTGCTGCTGCTGCTGCTGCCGCTTCGG *********************************.(((.(((.....((((((((((.((.((.((.((..........)).)).)).)).)))))))))).....))))))...........*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	O001 Testis	O002 Head	SRR553487 NRT_0-2 hours eggs	SRR618934 dsim w501 ovaries
..................................................GCTGTCGCTGCTGCTGCT...........................................................................................	18	0	5	6.00	30	20	10	0	0
..................................................................CTGCTGAGGTCTTTGTTGTTGTT......................................................................	23	3	15	0.07	1	0	0	1	0
..................................................................CTGCTGAGGTCTTTGTTGTTGT.......................................................................	22	3	19	0.05	1	0	0	1	0
................................................................TGCTTCTGTGCTAGTTG..............................................................................	17	2	20	0.05	1	0	0	0	1

############################################################################################################################################################### ACAACAACGACAACGAGAACAGGCACCCGCACCGTACCGATCAACAACAGCGACAGCGACGACGACGACGACACGAGCAACAACAACAACAACACCGTCGCCTTCAACGACGACAACAACACGATCAACGACGACGACGACGACGACGACGGCGAAGCC *********************************.(((.(((.....((((((((((.((.((.((.((..........)).)).)).)).)))))))))).....))))))...........*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	O002 Head	SRR553487 NRT_0-2 hours eggs	GSM343915 embryo
.....................................................................................................CTTCAACGACGACAACAA........................................	18	0	1	1.00	1	1	0	0
.........................................................................CGAGCAACAAGAACAA......................................................................	16	1	20	0.10	2	0	2	0
...................CAGGCACCCGCTCCG.............................................................................................................................	15	1	20	0.05	1	0	1	0
................................................................................................................................CGACGACGACGACGACGACGAC.........	22	0	20	0.05	1	0	0	1

Species	Coordinate	ID	Alignment
droSim2	x:5371990-5372148 -	dsi_249	TGT-TG--TTGCTGTTGCTCTTGT---CCGT-GGGCGTGGCATGGCTAGTTG---------T-------TGTC---GCTGTC----GCTGCTGCTGCTGCTGTGCT------CGTTGTTGT------TG------TT-------G-----TTGTGGCA---------GCGG-AA---GTTGCTGCTGTTG---TTGTGCT----------AGTTGCTGCTGCTGCT--GCTGCTGCTGCCGCTTCGG
droSec2	scaffold_4:1033290-1033436 +		TGT-TG--TTGCTGTTGCTCTTGT---CCGT-GGGCGTGGCATGGCTAGTTG---------T-------TGTC---GCTGTC----GCTGCTGCTGCTCCTGTGCT------CGTTGTTGT------TG------TT-------GGTG--TGGCA------------GCGG-AA---GTTGCTGCTGTTG---T----------------------TGTGCTAGTT--GCTGCTGCCGCCGCTTCGG
dm3	chrX:5732215-5732376 -		TGT-TG--TTGCTGTTGCTCTTGT---CCGT-GGGCGTGGCATGGCTAGTTG---------T-------TGTT---GCTGTC----GCTGCTGCTGCT---GTGCT------CGTTGTTGT------TG------TT-------GGTG--TTTCA------------GCGG-ATGTTGCTACTGTTGTTGTGCCAGTTGC----------TGCTGCTGCTGCTGCT--GCTGCTGCTGCCGCTTCGA
droEre2	scaffold_4690:3079682-3079819 -		TGT-TG--TTGCTGTTGTCC---------GT-GGGCGTGGCATGGGTGGTTG---------T--------------------------------TGCTGCTGCCGC------GCTTGTTGT------TGTTG---CT-------G-----TGGCAGCG----------------GCTGCTGCTGCTGTTGTTGTGCTAGT----------TGCTGCTGCTGCTGCT--GCCGTTGCTGCCGCTTCGG
droYak3	X:2739742-2739891 +		TGT-TG--TTGCTGTTGTCC---------GT-GGGCGTGGCATGGCTAGTTG---------T-------TGTT---GTTGTT----GCTGCTGCTGATGCTGTTGT------GCT------------TGTTG---TT-------G-----TTGTTCTTGTTGTGGCAGCGG-AT---GTTGCAGCTGTTG---TT-------------------GTGCTAGTTGCT--GCTGGTGCTGCTGGTTCGC
droEug1	scf7180000409787:1172169-1172321 -		TGC-TG--CTGATGTTGCTGGTGT---AT-T-GGAAGCGGA---------------TG---T-C-----AGTT---GCTGCG----CCGCCTGCTGCTGATGTTGC------AGTTGATGC------TGCTG---CT-------G-----TTGCTGCT----------------GCTGCTGCTGTTGCTGCTGGTGTTGC----------TGGTGCTGCTGCTGCA--AGTGCTGTTGCTGCTGCGA
droBia1	scf7180000302428:1708426-1708577 -		TGT-TG--CTGCTGCTGCTGTTGC---AGGT-AT-------------TGC------TGTTGC-------TGTT---GCTGCC----GCTGCTGCTGCTGCTGTGGC------CGGTGTTGC------TGCCG---CT-------G-----CTGTTGTT----------------GCTATTGCCGCTGTTGTTGATTTTGC----------TGCTGTTGCTGTTGCT--GCTGCTGCTGTCGCTGCTG
droTak1	scf7180000414106:7134-7296 -		TGC-TG--TTGCTGTTGCTGTTGC---CGTT-GGTGGCGGC---------------CG---T-TG--GCTGTT---GCTGTT----GCTGCTGCTGCTGATG------------TTGCTGC------TGCTG---CCTGGCATAGTAGTCCCAGTGTT----------------GCTGCTGCTGTTGCTGCTGGTGTTGC----------TGCTGCTGCTGGAGAT--GTTGCTGCTGCTGCTGCGG
droEle1	scf7180000491193:1574145-1574291 +		C-T-TG--TTGTTGTTGCTGCTGT------T-GGGC----TACAGCT----------------------TGTT---GTTGTT----GCTGCTGCTGTTGCTGCTGGGCGGCCGCTTGT------------TGCTGTT-------G------GGCA------------GCAGCTT---GTTGCTGCTGTTG---TT---GT----------TGTTGCTGCTGTTGCTTGGCTGCCTCCGCTGCAATCG
droRho1	scf7180000777386:198280-198438 +		TGC-TG--ATGATGTTGCTCATGT---TTGTTGC----TGCTGG------------TG----TTGATGTTGCT---GGTGTT----GCTGTTGCTGCTGCTGCTGC------TGTTGCTGC------TGTTG---CT-------G-----TTGCTGTT----------------GCTGTTGCTGCTGTTGCTGTTGCTGT----------TGCTGCTGCTGCTGCT--GTTGCTGCTGCTGCTCCTG
droFic1	scf7180000453829:1093061-1093219 -		TGTCTG--TTGCTGCTGTTGTTGT---ATTT-GGTGCTGT----------------TG---T-TGTTGTAGTT---GCTGCT----GCTGCTGCTGTTGTTGTTGT------AGTTGCTGC------TGTTG---CT-------G-----TTGTTGCT----------------GCTGCTGTTGCTGCTGTTGTTGTTGT----------AGTTGCTGCTGTTGCT--GTTGCTGCTGCTGTTGTTG
droKik1	scf7180000302220:11877-12036 -		TGC-TG--CTGTTGTTGTTGTTGTGA-TGCT-GC---------AGC-TG---G---TG----CTGTTGCTGCT---GTTGGT----GCTGCTGCTGCTGTTGCTGC------TGCTGCTGT------TGTTG---CT-------G-----CTGCTGCT----------------GGTGGTGCTGCTGCTGCTGGTGCTGC----------TGCTGCTGGTGCTGCT--GCTGCTGGTGCTGCTTCTG
droAna3	scaffold_13337:21935577-21935733 +		AGT-TAAGGGTCTTTTGCG-TGGT---TTGT-TGACGAGGCATGGCTACGTG---------G-------TG-C---ACTGTAGCGGACAGCTGCGGCT---GGGCT------TGTGGC---------TGTTG---TT-------G-----TTGCTGCA---------GCTG-TT---GCTGCTGCTGTTG---C---TGC----------TGCTGCTGCTGTTGCT--GCTGCTGTTGCTGTTGTTG
droBip1	scf7180000395567:7294-7450 +		T-T-TG--CTGCTGGTGCGGCTGA---AGCT-GT----TGCTGGTGCAGGTG---------C-------TGTT---GCTGTT----GCTGCTGCTGCTGGTGTTGT------AACTGTTGC------TGGTG---CT-------G-----TTGCAGCT----------------GATGTTGCTGCTGTTGTTGCTGCTGG----------TGTTGCTGCTGCTGGT--GCTGTTGCTGCAGCTGCTG
dp5	Unknown_group_563:13964-14121 -		TGC-TG--CTGCTGCTGCTGCTGC---TGCT-GCTGCTGG----------------CG----CTGCTGATGTT---GGTGCT----GCTGCTGCTGCTGCTGCTGC------GGCTGCTGA------TGTTG---GT-------G-----CTGCTGCT----------------GCTGTTGCTGCTGCGGCTGCTGATGT----------TGGTGCTGCTGCTGCT--GCTGCTGCTGCTGCTGCTG
droPer2	scaffold_76:249930-250093 -		TGT-TG--CTGTTGTTGCTGCTGC---TGCT-GCGCCTGGCAATTG--G---CCGCCG---C------CTGCT---GCTGCT----GCTGCTGTTGTTGTTGTTGT------TGTTGTTGT------TGTTG---CT-------G-----TTGCTGTT----------------GCTGCTGCTGCTGTTGTTGCTGCTGT----------TGTTGCTGCTGTTGTT--GCTGCTGTTGTTGCTGCTG
droWil2	scf2_1100000004776:18516-18682 +		TGC-TG--TTGCTGCTGCTGTTGTTGCAGTT-GC----TGC---------------TG----CTGCTGCTGTTGTTGCTGTT----GCTGTTGTTGCTGCTGTTGT------TGTTGCTGTTGCTGTTGTTG---CT-------G-----CTGCTGTT----------------GTTGTTGCTGCTGTTGTTGCTGTTGC----------TGTTGCTGCTGCTGTT--GTTGCTGTTGCTGCTGCAG
droVir3	scaffold_13049:6096733-6096887 -		TGC-TG--CTGCTGCTGCTGTTGT---TGTT-GC-------------TG---T---TG----TTGCTGCTGTTGTTGCTGTT----GTTGTTGCTGCTGCTGTTGT------TGTTGTTGT------TGATG---CT-------G-----TTGTTGTT-------------------GTTGTTGTTGCTGCTGTTGCTGT----------TGTTGTTGTTGTTGCT--GCTGCTGTTGCTGCTGCTG
droMoj3	scaffold_6359:1775383-1775535 -		TGT-TG--TTGTTGCTGCAGTTGT---CGGA-GC-------------AG---T---TG---C-TGTGGCAGCT---GTTGCT----GCTGCTGCTGCTGCTGCTG---------TTGCTGC------TGTTG---CT-------G-----------TT----------------GTTGCTGCTGTTGCTG---TTGCGGCGTTGGTCTTCTGCTGCTGCTGCTGCT--GTTGATGCTTCTGCTTCTG
droGri2	scaffold_14853:5617620-5617779 +		TGT-TG--TTGCTGCTGCTGCTGC---AGTT-GT-TGTTGCAGTTGCTGCTG---------T-------TGTT---GGTGTT----GCTGCTGCTGCTGCTGCTGC------TGC---TGT------TG------TT-------G-----TTGTTGCT---------GCTG-CTGCGGCTGCTGCTGCTGTTGTTGTTGT----------TGTTGCTGCTGCTGGT--GTTGCTGTTGC-GCGACAA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim2

TGT-TG--TTGCTGTTGCTCTTGT---CCGT-GGGCGTGGCATGGCTAGTTG---------T-------TGTC---GCTGTC----GCTGCTGCTGCTGCTGTGCT------CGTTGTTGT------TG------TT-------G-----TTGTGGCA---------GCGG-AA---GTTGCTGCTGTTG---TTGTGCT----------AGTTGCTGCTGCTGCT--GCTGCTGCTGCCGCTTCGG	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
............................................................................GCTGTC----GCTGCTGCTGCT.....................................................................................................................................................	18	5	6.00	30	0	0	0	0	20	10	0	0	0	0	0	0	0	0	0	0	0

droSec2

TGT-TG--TTGCTGTTGCTCTTGT---CCGT-GGGCGTGGCATGGCTAGTTG---------T-------TGTC---GCTGTC----GCTGCTGCTGCTCCTGTGCT------CGTTGTTGT------TG------TT-------GGTG--TGGCA------------GCGG-AA---GTTGCTGCTGTTG---T----------------------TGTGCTAGTT--GCTGCTGCCGCCGCTTCGG	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

dm3

TGT-TG--TTGCTGTTGCTCTTGT---CCGT-GGGCGTGGCATGGCTAGTTG---------T-------TGTT---GCTGTC----GCTGCTGCTGCT---GTGCT------CGTTGTTGT------TG------TT-------GGTG--TTTCA------------GCGG-ATGTTGCTACTGTTGTTGTGCCAGTTGC----------TGCTGCTGCTGCTGCT--GCTGCTGCTGCCGCTTCGA	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
......................................................................GTT---GCTGTC----GCTGCTGCTGCT---GTGC..............................................................................................................................................	25	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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---------T-------TGTT---GCTGTC----GCTGCTGC.........................................................................................................................................................	20	5	1.40	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	7
................................................GTTG---------T-------TGTT---GCTGTC----GCTGCTGCT........................................................................................................................................................	24	2	1.00	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	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
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.............................................................................................................................................................................TGTTGCTACTGTTGTTGTA.......................................................	19	7	0.14	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	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
.................................................................................................................GTTGTTGT------TG------TT-------GGTG--TT...............................................................................................	18	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
............................................................................................................................................................................................................................GCTGCT--GCTGCTGCTGCCGCT....	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................TGCTGCTGCTGCT--GCTGCT.............	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	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

droEre2

TGT-TG--TTGCTGTTGTCC---------GT-GGGCGTGGCATGGGTGGTTG---------T--------------------------------TGCTGCTGCCGC------GCTTGTTGT------TGTTG---CT-------G-----TGGCAGCG----------------GCTGCTGCTGCTGTTGTTGTGCTAGT----------TGCTGCTGCTGCTGCT--GCCGTTGCTGCCGCTTCGG	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

droYak3

TGT-TG--TTGCTGTTGTCC---------GT-GGGCGTGGCATGGCTAGTTG---------T-------TGTT---GTTGTT----GCTGCTGCTGATGCTGTTGT------GCT------------TGTTG---TT-------G-----TTGTTCTTGTTGTGGCAGCGG-AT---GTTGCAGCTGTTG---TT-------------------GTGCTAGTTGCT--GCTGGTGCTGCTGGTTCGC

Size

Hit Count

Total Norm

Total

M026
Head

M043
Female-body

M056
Embryo

V046
Embryo

V052
Head

V058
Head

V120
Male-body

SRR1275488
Male larvae

SRR1275486
Male prepupae

SRR1275484
Male prepupae

GSM1528802
follicle cells

No Reads

droEug1

TGC-TG--CTGATGTTGCTGGTGT---AT-T-GGAAGCGGA---------------TG---T-C-----AGTT---GCTGCG----CCGCCTGCTGCTGATGTTGC------AGTTGATGC------TGCTG---CT-------G-----TTGCTGCT----------------GCTGCTGCTGTTGCTGCTGGTGTTGC----------TGGTGCTGCTGCTGCA--AGTGCTGTTGCTGCTGCGA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TGT-TG--CTGCTGCTGCTGTTGC---AGGT-AT-------------TGC------TGTTGC-------TGTT---GCTGCC----GCTGCTGCTGCTGCTGTGGC------CGGTGTTGC------TGCCG---CT-------G-----CTGTTGTT----------------GCTATTGCCGCTGTTGTTGATTTTGC----------TGCTGTTGCTGTTGCT--GCTGCTGCTGTCGCTGCTG	Size	Hit Count	Total Norm	Total
No Reads

droTak1

TGC-TG--TTGCTGTTGCTGTTGC---CGTT-GGTGGCGGC---------------CG---T-TG--GCTGTT---GCTGTT----GCTGCTGCTGCTGATG------------TTGCTGC------TGCTG---CCTGGCATAGTAGTCCCAGTGTT----------------GCTGCTGCTGTTGCTGCTGGTGTTGC----------TGCTGCTGCTGGAGAT--GTTGCTGCTGCTGCTGCGG	Size	Hit Count	Total Norm	Total
No Reads

droEle1

C-T-TG--TTGTTGTTGCTGCTGT------T-GGGC----TACAGCT----------------------TGTT---GTTGTT----GCTGCTGCTGTTGCTGCTGGGCGGCCGCTTGT------------TGCTGTT-------G------GGCA------------GCAGCTT---GTTGCTGCTGTTG---TT---GT----------TGTTGCTGCTGTTGCTTGGCTGCCTCCGCTGCAATCG	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TGC-TG--ATGATGTTGCTCATGT---TTGTTGC----TGCTGG------------TG----TTGATGTTGCT---GGTGTT----GCTGTTGCTGCTGCTGCTGC------TGTTGCTGC------TGTTG---CT-------G-----TTGCTGTT----------------GCTGTTGCTGCTGTTGCTGTTGCTGT----------TGCTGCTGCTGCTGCT--GTTGCTGCTGCTGCTCCTG	Size	Hit Count	Total Norm	Total
No Reads

droFic1

TGTCTG--TTGCTGCTGTTGTTGT---ATTT-GGTGCTGT----------------TG---T-TGTTGTAGTT---GCTGCT----GCTGCTGCTGTTGTTGTTGT------AGTTGCTGC------TGTTG---CT-------G-----TTGTTGCT----------------GCTGCTGTTGCTGCTGTTGTTGTTGT----------AGTTGCTGCTGTTGCT--GTTGCTGCTGCTGTTGTTG	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TGC-TG--CTGTTGTTGTTGTTGTGA-TGCT-GC---------AGC-TG---G---TG----CTGTTGCTGCT---GTTGGT----GCTGCTGCTGCTGTTGCTGC------TGCTGCTGT------TGTTG---CT-------G-----CTGCTGCT----------------GGTGGTGCTGCTGCTGCTGGTGCTGC----------TGCTGCTGGTGCTGCT--GCTGCTGGTGCTGCTTCTG	Size	Hit Count	Total Norm	Total
No Reads

droAna3

AGT-TAAGGGTCTTTTGCG-TGGT---TTGT-TGACGAGGCATGGCTACGTG---------G-------TG-C---ACTGTAGCGGACAGCTGCGGCT---GGGCT------TGTGGC---------TGTTG---TT-------G-----TTGCTGCA---------GCTG-TT---GCTGCTGCTGTTG---C---TGC----------TGCTGCTGCTGTTGCT--GCTGCTGTTGCTGTTGTTG	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
........................................................................................................................................T-------G-----TTGCTGCA---------GCTG-TT---GCTGCTGC..............................................................	24	1	1.00	1	1	0	0	0	0	0

droBip1

T-T-TG--CTGCTGGTGCGGCTGA---AGCT-GT----TGCTGGTGCAGGTG---------C-------TGTT---GCTGTT----GCTGCTGCTGCTGGTGTTGT------AACTGTTGC------TGGTG---CT-------G-----TTGCAGCT----------------GATGTTGCTGCTGTTGTTGCTGCTGG----------TGTTGCTGCTGCTGGT--GCTGTTGCTGCAGCTGCTG	Size	Hit Count	Total Norm	Total
No Reads

dp5

TGC-TG--CTGCTGCTGCTGCTGC---TGCT-GCTGCTGG----------------CG----CTGCTGATGTT---GGTGCT----GCTGCTGCTGCTGCTGCTGC------GGCTGCTGA------TGTTG---GT-------G-----CTGCTGCT----------------GCTGTTGCTGCTGCGGCTGCTGATGT----------TGGTGCTGCTGCTGCT--GCTGCTGCTGCTGCTGCTG	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
......................................................................................................................TGA------TGTTG---GT-------G-----CTGCTGCT----------------G........................................................................	20	20	2.15	43	0	37	0	0	0	0	0	6	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTG.......................	20	20	2.15	43	0	37	0	0	0	0	0	6	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTG..........................................................................................................................................................	20	20	2.15	43	0	37	0	0	0	0	0	6	0	0
..................................TGCTGG----------------CG----CTGCTGATGTT---G..........................................................................................................................................................................	20	9	1.44	13	0	13	0	0	0	0	0	0	0	0
..................................TGCTGG----------------CG----CTGCTGATGTT---GG.........................................................................................................................................................................	21	9	1.11	10	0	9	0	0	1	0	0	0	0	0
...................................................................................................................TGCTGA------TGTTG---GT-------G-----CTGCTG...........................................................................................	20	20	1.10	22	0	21	0	0	0	0	0	1	0	0
...............................................................................................................................................................................................TGCTGATGT----------TGGTGCTGCTG..........................	20	20	1.10	22	0	21	0	0	0	0	0	1	0	0
.................................................................CTGATGTT---GGTGCT----GCTGCTG..........................................................................................................................................................	21	20	1.10	22	0	15	0	0	0	0	0	7	0	0
...............................................................TGCTGATGTT---GGTGCT----GCTG.............................................................................................................................................................	20	20	1.10	22	0	21	0	0	0	0	0	1	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTGCTG.......................	21	20	1.10	22	0	15	0	0	0	0	0	7	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTGC.........................................................................................................................................................	21	20	1.05	21	0	8	0	0	0	0	0	13	0	0
......................................................................................................................TGA------TGTTG---GT-------G-----CTGCTGCT----------------GC.......................................................................	21	20	1.05	21	0	8	0	0	0	0	0	13	0	0
..............................T-GCTGCTGG----------------CG----CTGCTGATG................................................................................................................................................................................	20	16	1.00	16	0	16	0	0	0	0	0	0	0	0
.....................................TGG----------------CG----CTGCTGATGTT---GGTG.......................................................................................................................................................................	20	9	1.00	9	0	8	1	0	0	0	0	0	0	0
.....................................................................................................................CTGA------TGTTG---GT-------G-----CTGCTGCT----------------G........................................................................	21	20	0.75	15	0	15	0	0	0	0	0	0	0	0
......................................................................................................................TGA------TGTTG---GT-------G-----CTGCTGCT----------------GCTGT....................................................................	24	3	0.67	2	0	2	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTGC......................	21	20	0.65	13	0	0	0	0	0	0	0	13	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTGCTG.......................................................................................................................................................	23	20	0.60	12	0	11	0	0	0	0	0	1	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTGC.........................	19	20	0.60	12	0	7	0	0	0	0	2	3	0	0
.....................................................................................................................CTGA------TGTTG---GT-------G-----CTGCTGC..........................................................................................	19	20	0.60	12	0	7	0	0	0	0	2	3	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTGCT--G..................	23	20	0.60	12	0	11	0	0	0	0	0	1	0	0
..................................TGCTGG----------------CG----CTGCTGATGTT---...........................................................................................................................................................................	19	9	0.56	5	0	4	0	0	1	0	0	0	0	0
......................................................................................................................TGA------TGTTG---GT-------G-----CTGCTGCT----------------GCTG.....................................................................	23	20	0.55	11	0	11	0	0	0	0	0	0	0	0
.................................................................CTGATGTT---GGTGCT----GCTG.............................................................................................................................................................	18	20	0.50	10	0	8	0	0	0	0	0	2	0	0
.................................................................CTGATGTT---GGTGCT----GCTGC............................................................................................................................................................	19	20	0.45	9	0	7	0	0	0	0	2	0	0	0
.....................................TGG----------------CG----CTGCTGATGTT---GG.........................................................................................................................................................................	18	9	0.44	4	0	3	0	0	1	0	0	0	0	0
.................................CTGCTGG----------------CG----CTGCTGATGTT---GG.........................................................................................................................................................................	22	9	0.44	4	0	4	0	0	0	0	0	0	0	0
.....................................................................................................................CTGA------TGTTG---GT-------G-----CTGCTG...........................................................................................	18	20	0.40	8	0	8	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTG..........................	18	20	0.40	8	0	8	0	0	0	0	0	0	0	0
.....................................................................................................................CTGA------TGTTG---GT-------G-----CTGCTGCT----------------GC.......................................................................	22	20	0.35	7	0	3	0	0	0	0	0	4	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTGCTGC......................	22	20	0.35	7	0	3	0	0	0	0	0	4	0	0
...................................GCTGG----------------CG----CTGCTGATGTT---G..........................................................................................................................................................................	19	9	0.33	3	0	3	0	0	0	0	0	0	0	0
.....................................TGG----------------CG----CTGCTGATGTT---GGT........................................................................................................................................................................	19	9	0.33	3	0	2	0	0	1	0	0	0	0	0
..................................TGCTGG----------------CG----CTGCTGATGTT---GGT........................................................................................................................................................................	22	9	0.33	3	0	3	0	0	0	0	0	0	0	0
...........................TGCT-GCTGCTGG----------------CG----CTGCTGATG................................................................................................................................................................................	23	16	0.31	5	0	4	0	0	1	0	0	0	0	0
...............................................................TGCTGATGTT---GGTGCT----GCTGCTG..........................................................................................................................................................	23	20	0.30	6	0	6	0	0	0	0	0	0	0	0
..................................................................TGATGTT---GGTGCT----GCTGCT...........................................................................................................................................................	19	20	0.30	6	0	4	0	0	0	0	0	2	0	0
...................................................................................................................TGCTGA------TGTTG---GT-------G-----CTGCTGCT----------------G........................................................................	23	20	0.30	6	0	6	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................TGCTGATGT----------TGGTGCTGCTGCTG.......................	23	20	0.30	6	0	6	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCT........................	19	20	0.30	6	0	4	0	0	0	0	0	2	0	0
...............................................................................................................................................................................................TGCTGATGT----------TGGTGCTGCTGC.........................	21	20	0.30	6	0	6	0	0	0	0	0	0	0	0
......................................................................................................................TGA------TGTTG---GT-------G-----CTGCTGCT----------------.........................................................................	19	20	0.30	6	0	4	0	0	0	0	0	2	0	0
...................................................................................................................TGCTGA------TGTTG---GT-------G-----CTGCTGC..........................................................................................	21	20	0.30	6	0	6	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................TGCGGCTGCTGATGT----------TGGTGC...............................	21	15	0.27	4	0	4	0	0	0	0	0	0	0	0
.......................................................................................................TGC------GGCTGCTGA------TGTTG---GT-------G-----C................................................................................................	21	15	0.27	4	0	4	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................GATGT----------TGGTGCTGCTGCTG.......................	19	20	0.25	5	0	3	0	0	0	0	0	2	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTGCT--GCTGC..............	27	20	0.25	5	0	2	0	0	0	0	0	3	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTGCTGCTG....................................................................................................................................................	26	20	0.25	5	0	5	0	0	0	0	0	0	0	0
...............................................................TGCTGATGTT---GGTGCT----GCTGCTGC.........................................................................................................................................................	24	20	0.25	5	0	1	0	0	0	0	0	4	0	0
.......................................................................................................................GA------TGTTG---GT-------G-----CTGCTGCT----------------G........................................................................	19	20	0.25	5	0	3	0	0	0	0	0	2	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTGCTGCTGC...................................................................................................................................................	27	20	0.25	5	0	2	0	0	0	0	0	3	0	0
...............................................................................................................................................................................................TGCTGATGT----------TGGTGCTGCTGCTGC......................	24	20	0.25	5	0	1	0	0	0	0	0	4	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTGCT--GCTG...............	26	20	0.25	5	0	5	0	0	0	0	0	0	0	0
...................................................................................................................TGCTGA------TGTTG---GT-------G-----CTGCTGCT----------------GC.......................................................................	24	20	0.25	5	0	1	0	0	0	0	0	4	0	0
...................................................................GATGTT---GGTGCT----GCTGCTG..........................................................................................................................................................	19	20	0.25	5	0	3	0	0	0	0	0	2	0	0
..............................T-GCTGCTGG----------------CG----CTGCTGATGT...............................................................................................................................................................................	21	9	0.22	2	0	2	0	0	0	0	0	0	0	0
......................................GG----------------CG----CTGCTGATGTT---GGTG.......................................................................................................................................................................	19	9	0.22	2	0	2	0	0	0	0	0	0	0	0
...................................GCTGG----------------CG----CTGCTGATGTT---GG.........................................................................................................................................................................	20	9	0.22	2	0	2	0	0	0	0	0	0	0	0
.....................................TGG----------------CG----CTGCTGATGTT---GGTA.......................................................................................................................................................................	20	9	0.22	2	0	1	0	0	1	0	0	0	0	0
......................................GG----------------CG----CTGCTGATGTT---GGTGC......................................................................................................................................................................	20	9	0.22	2	0	2	0	0	0	0	0	0	0	0
.....................................TGG----------------CG----CTGCTGATGTT---GGTGCT----G................................................................................................................................................................	23	9	0.22	2	0	2	0	0	0	0	0	0	0	0
..................................TGCTGG----------------CG----CTGCTGATGT...............................................................................................................................................................................	18	9	0.22	2	0	2	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTGCT........................	20	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.................................................................CTGATGTT---GGTGCT----GCTGCT...........................................................................................................................................................	20	20	0.20	4	0	4	0	0	0	0	0	0	0	0
...................................................................GATGTT---GGTGCT----GCTGCTGCTGCTGC...................................................................................................................................................	26	20	0.20	4	0	4	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................TGCTGATGT----------TGGTGCTGC............................	18	20	0.20	4	0	4	0	0	0	0	0	0	0	0
...................................................................................................................................................................................TGCTGCTGCGGCTGCTGATG................................................	20	15	0.20	3	0	3	0	0	0	0	0	0	0	0
.................................................................................................TGCTGCTGC------GGCTGCTGA------TG......................................................................................................................	20	15	0.20	3	0	3	0	0	0	0	0	0	0	0
.................................................................CTGATGTT---GGTGCT----GCTGCTGC.........................................................................................................................................................	22	20	0.20	4	0	0	0	0	0	0	0	4	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTGCTGC......................................................................................................................................................	24	20	0.20	4	0	2	0	0	0	0	0	2	0	0
.........................................................................................................................................................................................TGCGGCTGCTGATGT----------TGGTG................................	20	15	0.20	3	0	3	0	0	0	0	0	0	0	0
...................................................................................................................TGCTGA------TGTTG---GT-------G-----CTGC.............................................................................................	18	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.......................................................................................................TGC------GGCTGCTGA------TGTTG---GT-------G-----.................................................................................................	20	15	0.20	3	0	3	0	0	0	0	0	0	0	0
.....................................................................................................................CTGA------TGTTG---GT-------G-----CTGCTGCT----------------.........................................................................	20	20	0.20	4	0	4	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................GATGT----------TGGTGCTGCTGCTGCT--GCTGC..............	26	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.................................................................CTGATGTT---GGTGCT----GCTGCTGCTGC......................................................................................................................................................	25	20	0.20	4	0	2	0	0	0	0	0	2	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTGCTGCT--GC.................	25	20	0.20	4	0	2	0	0	0	0	0	2	0	0
...............................................................................................................................TGTTG---GT-------G-----CTGCTGCT----------------GCTGTTG..................................................................	23	6	0.17	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGC.........................	18	20	0.15	3	0	2	0	0	0	0	0	1	0	0
...............................................................................................................................................................................................TGCTGATGT----------TGGTGCTGCT...........................	19	20	0.15	3	0	3	0	0	0	0	0	0	0	0
......................................................................................................................TGA------TGTTG---GT-------G-----CTGCTGC..........................................................................................	18	20	0.15	3	0	2	0	0	0	0	0	1	0	0
...................................................................................................................TGCTGA------TGTTG---GT-------G-----CTGCT............................................................................................	19	20	0.15	3	0	3	0	0	0	0	0	0	0	0
...............................................................TGCTGATGTT---GGTGCT----GCT..............................................................................................................................................................	19	20	0.15	3	0	3	0	0	0	0	0	0	0	0
.................................................................CTGATGTT---GGTGCT----GCTGCTGCTG.......................................................................................................................................................	24	20	0.15	3	0	3	0	0	0	0	0	0	0	0
..................................................................TGATGTT---GGTGCT----GCTGC............................................................................................................................................................	18	20	0.15	3	0	2	0	0	0	0	0	1	0	0
....................................................................................................TGCTGC------GGCTGCTGA------TGTTG---G...............................................................................................................	21	15	0.13	2	0	2	0	0	0	0	0	0	0	0
......................................................................................................................................................................................TGCTGCGGCTGCTGATGT----------TGG..................................	21	15	0.13	2	0	2	0	0	0	0	0	0	0	0
................................GCTGCTGG----------------CG----CTGCTGATG................................................................................................................................................................................	19	16	0.13	2	0	2	0	0	0	0	0	0	0	0
..............................T-GCTGCTGG----------------CG----CTGCTGAT.................................................................................................................................................................................	19	17	0.12	2	0	2	0	0	0	0	0	0	0	0
.................................CTGCTGG----------------CG----CTGCTGATG................................................................................................................................................................................	18	17	0.12	2	0	2	0	0	0	0	0	0	0	0
......................................GG----------------CG----CTGCTGATGTT---GGTGCT----.................................................................................................................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0
................................GCTGCTGG----------------CG----CTGCTGATGTT---GGT........................................................................................................................................................................	24	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.....................................TGG----------------CG----CTGCTGATGTT---GGTGA......................................................................................................................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0
....................................CTGG----------------CG----CTGCTGATGTT---GGT........................................................................................................................................................................	20	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.......................................G----------------CG----CTGCTGATGTT---GGTGCT----G................................................................................................................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.......................................G----------------CG----CTGCTGATGTT---GGTGCT----A................................................................................................................................................................	21	9	0.11	1	0	0	0	0	1	0	0	0	0	0
....................................CTGG----------------CG----CTGCTGATGTT---GGA........................................................................................................................................................................	20	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.....................................TGG----------------CG----CTGCTGATGTT---GGTGC......................................................................................................................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0
..............................T-GCTGCTGG----------------CG----CTGCTGATGTT---G..........................................................................................................................................................................	23	9	0.11	1	0	1	0	0	0	0	0	0	0	0
........................................................CG----CTGCTGATGTT---GGTGCT----GC...............................................................................................................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0
......................................GG----------------CG----CTGCTGATGTT---GGTGA......................................................................................................................................................................	20	9	0.11	1	0	0	1	0	0	0	0	0	0	0
....................................CTGG----------------CG----CTGCTGATGTT---GGAA.......................................................................................................................................................................	21	9	0.11	1	0	0	0	0	1	0	0	0	0	0
...................................GCTGG----------------CG----CTGCTGATGTT---GGT........................................................................................................................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0
...................................GCTGG----------------CG----CTGCTGATGTT---GGTGC......................................................................................................................................................................	23	9	0.11	1	0	1	0	0	0	0	0	0	0	0
......................................GG----------------CG----CTGCTGATGTT---GGTGCT----GC...............................................................................................................................................................	23	9	0.11	1	0	1	0	0	0	0	0	0	0	0
....................................CTGG----------------CG----CTGCTGATGTT---G..........................................................................................................................................................................	18	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.................................CTGCTGG----------------CG----CTGCTGATGTT---G..........................................................................................................................................................................	21	9	0.11	1	0	1	0	0	0	0	0	0	0	0
......................................GG----------------CG----CTGCTGATGTT---GGTGCT----GCA..............................................................................................................................................................	24	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.................................CTGCTGG----------------CG----CTGCTGATGT...............................................................................................................................................................................	19	9	0.11	1	0	1	0	0	0	0	0	0	0	0
...................................GCTGG----------------CG----CTGCTGATGTT---GGTG.......................................................................................................................................................................	22	9	0.11	1	0	1	0	0	0	0	0	0	0	0
.....................................TGG----------------CG----CTGCTGATGTT---GGTGAA----.................................................................................................................................................................	22	9	0.11	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTGCT--GCTGCT.............	28	19	0.11	2	0	0	0	0	0	0	0	2	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTGCTGCTGCT..................................................................................................................................................	28	19	0.11	2	0	0	0	0	0	0	0	2	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTGCT........................................................................................................................................................	22	20	0.10	2	0	2	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTGCT--GC.................	24	20	0.10	2	0	0	0	0	0	0	0	2	0	0
................................................................................................................................................................................................GCTGATGT----------TGGTGCTGCTG..........................	19	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.................................................................CTGATGTT---GGTGCT----GCTGCTGCTGCTG....................................................................................................................................................	27	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................T----------TGGTGCTGCTGCTGCT--GCTG...............	21	20	0.10	2	0	2	0	0	0	0	0	0	0	0
....................................................................................................................GCTGA------TGTTG---GT-------G-----CTGCTG...........................................................................................	19	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.....................................................................TGTT---GGTGCT----GCTGCTGCTGCTG....................................................................................................................................................	23	20	0.10	2	0	2	0	0	0	0	0	0	0	0
..................TGCTGC---TGCT-GCTGCTGG----------------CG----C........................................................................................................................................................................................	21	20	0.10	2	0	2	0	0	0	0	0	0	0	0
..................TGCTGC---TGCT-GCTGCTGG----------------CG----CTGC.....................................................................................................................................................................................	24	20	0.10	2	0	2	0	0	0	0	0	0	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTT..........................................................................................................................................................	20	20	0.10	2	0	2	0	0	0	0	0	0	0	0
...........................................................................................TGCTGCTGCTGCTGC------GGCTG..................................................................................................................................	20	20	0.10	2	0	2	0	0	0	0	0	0	0	0
...................................................................GATGTT---GGTGCT----GCTGCTGCT........................................................................................................................................................	21	20	0.10	2	0	1	0	0	0	0	0	1	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTGCTGCT--GCTG...............	27	20	0.10	2	0	2	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTGCT--...................	22	20	0.10	2	0	2	0	0	0	0	0	0	0	0
................................................................GCTGATGTT---GGTGCT----GCTG.............................................................................................................................................................	19	20	0.10	2	0	2	0	0	0	0	0	0	0	0
......................................................................................................................TGA------TGTTG---GT-------G-----CTGCTGCT----------------GCT......................................................................	22	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.......................................................................TT---GGTGCT----GCTGCTGCTGCTG....................................................................................................................................................	21	20	0.10	2	0	2	0	0	0	0	0	0	0	0
.................................................................CTGATGTT---GGTGCT----GCTGCTGCT........................................................................................................................................................	23	20	0.10	2	0	1	0	0	0	0	0	0	1	0
...............................................................TGCTGATGTT---GGTGCT----GCTGCT...........................................................................................................................................................	22	20	0.10	2	0	1	0	0	0	0	0	1	0	0
................................................................................................CTGCTGCTGC------GGCTGCTGA------TGTTG---G...............................................................................................................	25	11	0.09	1	0	1	0	0	0	0	0	0	0	0
................................GCTGCTGG----------------CG----CTGCTGATGTA---A..........................................................................................................................................................................	22	11	0.09	1	0	1	0	0	0	0	0	0	0	0
.......................................G----------------CG----CTGCTGATGTT---GGTAA......................................................................................................................................................................	19	12	0.08	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................TGCTGCTGC------GGCTGCTGA------TGTTG---GT-------.......................................................................................................	25	13	0.08	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................TGCTGCTGCTGC------GGCTGCTGA------TG......................................................................................................................	23	13	0.08	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................TGCTGCTGCGGCTGCTGATGT----------.....................................	21	13	0.08	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................TGCTGCTGC------GGCTGCTGA------TGT.....................................................................................................................	21	13	0.08	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................TGCTGCTGCGGCTGCTGATGT----------TGGT.................................	25	13	0.08	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................TGC------GGCTGCTGA------TGTTG---GT-------G-----CTG..............................................................................................	23	15	0.07	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................TGCGGCTGCTGATGT----------TGGT.................................	19	15	0.07	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................................................................................GCTGCTGCGGCTGCTGATGT----------TG...................................	22	15	0.07	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................GCTGCTGC------GGCTGCTGA------TGTTG---................................................................................................................	22	15	0.07	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................TGC------GGCTGCTGA------TGTTG---GT-------.......................................................................................................	19	15	0.07	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................TGCGGCTGCTGATGT----------TGGTGT...............................	21	15	0.07	1	0	0	0	0	0	0	1	0	0	0
.......................................................................................................TGC------GGCTGCTGA------TGTTG---GT-------G-----T................................................................................................	21	15	0.07	1	0	0	0	0	0	0	1	0	0	0
.........................................................................................................................................................................................TGCGGCTGCTGATGT----------TGGTGCTG.............................	23	15	0.07	1	0	1	0	0	0	0	0	0	0	0
.............................CT-GCTGCTGG----------------CG----CTGCTGATG................................................................................................................................................................................	21	16	0.06	1	0	1	0	0	0	0	0	0	0	0
.....................TGC---TGCT-GCTGCTGG----------------CG----CTGCTGATG................................................................................................................................................................................	26	16	0.06	1	0	1	0	0	0	0	0	0	0	0
................................GCTGCTGG----------------CG----CTGCTGAT.................................................................................................................................................................................	18	17	0.06	1	0	1	0	0	0	0	0	0	0	0
...........................TGCT-GCTGCTGG----------------CG----CTGCTGA..................................................................................................................................................................................	21	18	0.06	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTGCTGCT--...................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTGCT--AG.................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................TGCTGA------TGTTG---GT-------G-----CTGCTGCT----------------.........................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTGCTGCT.....................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................CTGATGTT---GGTGCT----GCTGCTGCTTA......................................................................................................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................TGCTGATGT----------TGGTGCTGA............................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................TGA------TGTTG---GT-------G-----CTGCTG...........................................................................................	17	20	0.05	1	0	0	0	0	0	0	0	1	0	0
.................................................................CTGATGTT---GGTGCT----GCTGCTGT.........................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
................................................................GCTGATGTT---GGTGCT----GCTGCT...........................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.......................................................................TT---GGTGCT----GCTGCTGCTGCTGCTG.................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................TGA------TGTTG---GT-------G-----CTGCTGCT----------------GCTT.....................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................GA------TGTTG---GT-------G-----CTGCTGCT----------------GCTG.....................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................CTGA------TGTTG---GT-------G-----CTGCTGCT----------------GT.......................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................CTGA------TGTTG---GT-------G-----CTGCTGCT----------------GCT......................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTGCT--T..................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................GCTGATGT----------TGGTGCTGCT...........................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................TGATGTT---GGTGCT----GCTG.............................................................................................................................................................	17	20	0.05	1	0	0	0	0	0	0	0	1	0	0
....................................................................................................................GCTGA------TGTTG---GT-------G-----CTGCT............................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................GATGT----------TGGTGCTGCTGCTGCT--G..................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................TGCTGATGT----------TGGTGCTGCTGA.........................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTGT.........................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................TGCTGC---TGCT-GCTGCTGG----------------CG----CT.......................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................GA------TGTTG---GT-------G-----CTGCTGCT----------------GCT......................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...............................................................TGCTGATGTT---GGTGCT----GCTGA............................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
................................................................................................................................................................................................GCTGATGT----------TGGTGCTGCTGCT........................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
....................CTGC---TGCT-GCTGCTGG----------------CG----CTGC.....................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................GA------TGTTG---GT-------G-----CTGCTGCT----------------GC.......................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
................................................................GCTGATGTT---GGTGCT----GCT..............................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................TGCTGA------TGTTG---GT-------G-----CTGCTGA..........................................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................CTGA------TGTTG---GT-------G-----CTGCTGCT----------------A........................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................GATGT----------TGGTGCTGCTGCTGC......................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................GATGT----------TGGTGCTGCTGCTGCT--...................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTGCTGT......................	22	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...............................................................TGCTGATGTT---GGTGCT----GA...............................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................GCTGA------TGTTG---GT-------G-----CTGCTGT..........................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
......................................................................................................................TGA------TGTTG---GT-------G-----CTGCTGCT----------------GT.......................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................GATGTT---GGTGCT----GCTGCTGC.........................................................................................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................TGCTGC---TGCT-GCTGCTGG----------------CG----CTG......................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................CTGCTGA------TGTTG---GT-------G-----CTGT.............................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................TGATGT----------TGGTGCTGCTGCTGCT--GCT................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTGCTA.......................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...................................................................................................................TGCTGA------TGTTG---GT-------G-----CTGA.............................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................TGATGTT---GGTGCT----GCTGT............................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................................GCTGA------TGTTG---GT-------G-----CTGCTGCT----------------.........................................................................	21	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................CTGCTGATGT----------TGGTGCTGT............................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..............................................................CTGCTGATGTT---GGTGCT----GT...............................................................................................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................T----------TGGTGCTGCTGCTGCT--GCT................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................CTGATGT----------TGGTGCTGCTGT.........................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.....................TGC---TGCT-GCTGCTGG----------------CG----CTGCTG...................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
...........................TGCT-GCTGCTGG----------------CG----CTGC.....................................................................................................................................................................................	18	20	0.05	1	0	1	0	0	0	0	0	0	0	0
..................................................................TGATGTT---GGTGCT----GCTGCTGCTT.......................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................CTGA------TGTTG---GT-------G-----CTGCTGT..........................................................................................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0

droPer2

TGT-TG--CTGTTGTTGCTGCTGC---TGCT-GCGCCTGGCAATTG--G---CCGCCG---C------CTGCT---GCTGCT----GCTGCTGTTGTTGTTGTTGT------TGTTGTTGT------TGTTG---CT-------G-----TTGCTGTT----------------GCTGCTGCTGCTGTTGTTGCTGCTGT----------TGTTGCTGCTGTTGTT--GCTGCTGTTGTTGCTGCTG	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
................................................................................................................................................................................................................................TT--GCTGCTGTTGTTGCTG...	18	20	0.05	1	0	1	0	0	0	0
........................................................................................................GT------TGTTGTTGT------TGTTG---CT-------G-----TT...............................................................................................	21	20	0.05	1	0	0	0	0	0	1
....................................................................................................................................................................................................................TTGCTGCTGTTGTT--GCTG...............	18	20	0.05	1	0	1	0	0	0	0
............................................................................................................................................................TT----------------GCTGCTGCTGCTGTTGTT.......................................................	20	20	0.05	1	0	0	0	0	0	1

droWil2

TGC-TG--TTGCTGCTGCTGTTGTTGCAGTT-GC----TGC---------------TG----CTGCTGCTGTTGTTGCTGTT----GCTGTTGTTGCTGCTGTTGT------TGTTGCTGTTGCTGTTGTTG---CT-------G-----CTGCTGTT----------------GTTGTTGCTGCTGTTGTTGCTGTTGC----------TGTTGCTGCTGCTGTT--GTTGCTGTTGCTGCTGCAG	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.....................................................................................................................................................................................................TGC----------TGTTGCTGCTGCTGTT--G..................	20	20	1.45	29	0	28	0	1	0
...................................................................................................................................................................................TGCTGCTGTTGTTGCTGTTGC----------TG...................................	23	20	0.65	13	0	13	0	0	0
...........................................................................................................................................................................................................................TGCTGTT--GTTGCTGTTGCTGCTG...	23	20	0.60	12	0	12	0	0	0
.....................................................................................................................................................................................................TGC----------TGTTGCTGCTGCTGTT--GTTGC..............	24	20	0.55	11	0	11	0	0	0
..................................................................TGCTGTTGTTGCTGTT----GCTGTTG..........................................................................................................................................................	23	20	0.55	11	0	11	0	0	0
...............TGCTGTTGTTGCAGTT-GC----TGC---------------TG----.........................................................................................................................................................................................	23	12	0.50	6	0	6	0	0	0
..................................................................TGCTGTTGTTGCTGTT----GCTG.............................................................................................................................................................	20	20	0.40	8	0	8	0	0	0
........................................................TG----CTGCTGCTGTTGTTGCTG.......................................................................................................................................................................	20	20	0.35	7	0	7	0	0	0
.....................................................................................................................................................................................................TGC----------TGTTGCTGCTGCTGTT--GTTGCTG............	26	20	0.30	6	0	6	0	0	0
TGC-TG--TTGCTGCTGCTGTTGTTGCAG..........................................................................................................................................................................................................................	26	15	0.27	4	0	3	0	0	1
...............................................................................................................................................................................................TGCTGTTGC----------TGTTGCTGCTGCTGTT--G..................	26	20	0.20	4	0	4	0	0	0
TGC-TG--TTGCTGCTGCTGTTGTT..............................................................................................................................................................................................................................	22	20	0.20	4	0	4	0	0	0
...................................................................................................................................................................................TGCTGCTGTTGTTGCTGTTGC----------.....................................	21	20	0.20	4	0	4	0	0	0
.........TGCTGCTGCTGTTGTTGCAGTT-G......................................................................................................................................................................................................................	23	15	0.20	3	0	3	0	0	0
..................................................................................................................................................................................................TGTTGC----------TGTTGCTGCTGCTGTT--GTTG...............	26	20	0.20	4	0	4	0	0	0
.....................................................................................................................................................................................................................TGCTGCTGCTGTT--GTTGCTGTTGC........	24	20	0.20	4	0	4	0	0	0
..................TGTTGTTGCAGTT-GC----TGC---------------TG----CTG......................................................................................................................................................................................	23	13	0.15	2	0	2	0	0	0
..................................................................................................................................................................................................................TGTTGCTGCTGCTGTT--GTTGCTGTT..........	25	20	0.15	3	0	3	0	0	0
................................................................................................................................................................................................GCTGTTGC----------TGTTGCTGCTGCTGTT--G..................	25	20	0.15	3	0	3	0	0	0
...............................................................TGCTGCTGTTGTTGCTGTT----GCTGTTG..........................................................................................................................................................	26	20	0.15	3	0	3	0	0	0
........................................................TG----CTGCTGCTGTTGTTGCTGT......................................................................................................................................................................	21	20	0.15	3	0	3	0	0	0
......................................................................................................................................................................................TGCTGTTGTTGCTGTTGC----------T....................................	19	20	0.15	3	0	3	0	0	0
...................................................................................................................................................................................TGCTGCTGTTGTTGCTGTTGC----------TGTTG................................	26	20	0.15	3	0	3	0	0	0
............................................................................................................................................................................................TGTTGCTGTTGC----------TGTTGCTGCTG..........................	23	20	0.15	3	0	3	0	0	0
....TG--TTGCTGCTGCTGTTGTTGCAG..........................................................................................................................................................................................................................	23	15	0.13	2	0	1	0	1	0
........................TGCAGTT-GC----TGC---------------TG----CTGCTGCTGTTG.............................................................................................................................................................................	26	9	0.11	1	0	1	0	0	0
TGC-TG--TTGCTGCTGCTGTTGTTGCAA..........................................................................................................................................................................................................................	26	19	0.11	2	0	2	0	0	0
........................................................................................................................................................................................................................TGCTGCTGTT--GTTGCTGTTGCTGCTG...	26	20	0.10	2	0	2	0	0	0
.....................................................................TGTTGTTGCTGTT----GCTGTTGTTGC......................................................................................................................................................	24	20	0.10	2	0	2	0	0	0
................................................................GCTGCTGTTGTTGCTGTT----GC...............................................................................................................................................................	20	20	0.10	2	0	2	0	0	0
..................................................................................................................................TG---CT-------G-----CTGCTGTT----------------GTTGTTGCTGC..............................................................	24	20	0.10	2	0	2	0	0	0
..................TGTTGTTGCAGTT-GC----TGC---------------TG----CTGCTG...................................................................................................................................................................................	26	10	0.10	1	0	1	0	0	0
......................................................................................................................................................................................TGCTGTTGTTGCTGTTGC----------TGTTGC...............................	24	20	0.10	2	0	2	0	0	0
......................................................................................................................................................................................TGCTGTTGTTGCTGTTGC----------TGTT.................................	22	20	0.10	2	0	2	0	0	0
................................................................................................................................................................................TGTTGCTGCTGTTGTTGCTGTTGC----------.....................................	24	20	0.10	2	0	2	0	0	0
.GC-TG--TTGCTGCTGCTGTTGTTGC............................................................................................................................................................................................................................	23	20	0.10	2	0	2	0	0	0
.......................................................................................................TGT------TGTTGCTGTTGCTGTTGTTG---C...............................................................................................................	24	20	0.10	2	0	2	0	0	0
.......................................................................................................................................................TGCTGTT----------------GTTGTTGCTGCTGTTG.........................................................	23	20	0.10	2	0	2	0	0	0
TGC-TG--TTGCTGCTGCTGTTGTTG.............................................................................................................................................................................................................................	23	20	0.10	2	0	0	0	2	0
.........................................................................................................................TGCTGTTGTTG---CT-------G-----CTGCTGT..........................................................................................	21	20	0.10	2	0	2	0	0	0
...........................................................................TGCTGTT----GCTGTTGTTGCTGCTG.................................................................................................................................................	23	20	0.10	2	0	2	0	0	0
...............................................................................................................................................................................................TGCTGTTGC----------TGTTGCTGCTGCTG.......................	23	20	0.10	2	0	2	0	0	0
......................................................................................................................................................................................TGCTGTTGTTGCTGTTGC----------.....................................	18	20	0.10	2	0	2	0	0	0
.................................................................................................TGCTGTTGT------TGTTGCTGTTGCTGT........................................................................................................................	24	20	0.10	2	0	1	1	0	0
............................................................................................................................................................................................................................GCTGTT--GTTGCTGTTGCTGCT....	21	20	0.10	2	0	2	0	0	0
...................................................................................................................................................................................................GTTGC----------TGTTGCTGCTGCTGTT--GT.................	23	20	0.10	2	0	2	0	0	0
...............TGCTGTTGTTGCAGTT-GC----TGC---------------TG----C........................................................................................................................................................................................	24	12	0.08	1	0	1	0	0	0
.................CTGTTGTTGCAGTT-GC----TGC---------------TG----CTG......................................................................................................................................................................................	24	12	0.08	1	0	1	0	0	0
...............TGCTGTTGTTGCAGTT-GC----TGC---------------TG----CTA......................................................................................................................................................................................	26	12	0.08	1	0	1	0	0	0
..................TGTTGTTGCAGTT-GC----TGC---------------TG----.........................................................................................................................................................................................	20	13	0.08	1	0	1	0	0	0
..................................................................TGCTGTTGTTGCTGTT----GCTGTTGT.........................................................................................................................................................	24	13	0.08	1	0	1	0	0	0
......................................................................................................................................................................................TGCTGTTGTTGCTGTTGC----------TGTTGCTGC............................	27	13	0.08	1	0	1	0	0	0
..................TGTTGTTGCAGTT-GC----TGC---------------TG----CT.......................................................................................................................................................................................	22	13	0.08	1	0	1	0	0	0
...............TGCTGTTGTTGCAGTT-GC----TG...............................................................................................................................................................................................................	20	14	0.07	1	0	1	0	0	0
....TG--TTGCTGCTGCTGTTGTTGCAGTT-.......................................................................................................................................................................................................................	25	15	0.07	1	0	1	0	0	0
....TG--TTGCTGCTGCTGTTGTTGCAGTT-G......................................................................................................................................................................................................................	26	15	0.07	1	0	1	0	0	0
.....................TGTTGCAGTT-GC----TGC---------------TG----CTG......................................................................................................................................................................................	20	16	0.06	1	0	1	0	0	0
.....................................................................................................................................................................................CTGCTGTTGTTGCTGTTGC----------TGTTGC...............................	25	17	0.06	1	0	1	0	0	0
......................................................................GTTGTTGCTGTT----GCTGTTGTTGC......................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
.....................................................................................................................................................................................CTGCTGTTGTTGCTGTTGC----------T....................................	20	20	0.05	1	0	1	0	0	0
......................................TGC---------------TG----CTGCTGCTGTTGTTGCTGT......................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0
..........................................................................................................................................................................................GTTGTTGCTGTTGC----------TGTTGCTGCTGCT........................	27	20	0.05	1	0	1	0	0	0
................................................................................................................................GTTG---CT-------G-----CTGCTGTT----------------GTTGTTGC.................................................................	23	20	0.05	1	0	0	0	0	1
..............................T-GC----TGC---------------TG----CTGCTGCTGTTGTTGCT........................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
....................................................................................................TGTTGT------TGTTGCTGTTGCTGTTG......................................................................................................................	23	20	0.05	1	0	1	0	0	0
........................................................................................................GT------TGTTGCTGTTGCTGTTGTTG---C...............................................................................................................	23	20	0.05	1	0	1	0	0	0
..............................................................................................................................TTGTTG---CT-------G-----CTGCTGTT----------------GTTGTTG..................................................................	24	20	0.05	1	0	1	0	0	0
.........................................................................................GTTGTTGCTGCTGTTGT------TGT....................................................................................................................................	20	20	0.05	1	0	1	0	0	0
.....G--TTGCTGCTGCTGTTGTTG.............................................................................................................................................................................................................................	19	20	0.05	1	0	1	0	0	0
..............................T-GC----TGC---------------TG----CTGCTGCTGTTGTTGCTG.......................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0
...............................................................................................................................TGTTG---CT-------G-----CTGCTGTT----------------GTTGTTGCT................................................................	25	20	0.05	1	0	0	1	0	0
............................................................................................................................................................................................TGTTGCTGTTGC----------TGTTGCTGCTGC.........................	24	20	0.05	1	0	1	0	0	0
..................................................................................................................................................................................TTGCTGCTGTTGTTGCTG...................................................	18	20	0.05	1	0	0	0	1	0
..................................................................................................................TTGCTGTTGCTGTTGTTG---CT-------G-----CTA..............................................................................................	24	20	0.05	1	0	1	0	0	0
...........................................................................................................................................................................................TTGTTGCTGTTGC----------TGTTGC...............................	19	20	0.05	1	0	1	0	0	0
.........................................................................................................................TGCTGTTGTTG---CT-------G-----CTGCTGTT----------------GT.......................................................................	24	20	0.05	1	0	1	0	0	0
..........................................................................TTGCTGTT----GCTGTTGTTGCTGCTA.................................................................................................................................................	24	20	0.05	1	0	1	0	0	0
................GCTGTTGTTGCAGTT-GC----TGC---------------TG----T........................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0
..................................................................................................................................................................................................................TGTTGCTGCTGCTGTT--GTTGCTGT...........	24	20	0.05	1	0	0	0	0	1
.GC-TG--TTGCTGCTGCTGTTGTTG.............................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0
......................................................................................................TTGT------TGTTGCTGTTGCTGTTGTTG---................................................................................................................	24	20	0.05	1	0	0	0	0	1
.................................C----TGC---------------TG----CTGCTGCTGTTGTTGCTGT......................................................................................................................................................................	25	20	0.05	1	0	1	0	0	0
................................................................................................................TGTTGCTGTTGCTGTTGTTG---CT-------G-----.................................................................................................	23	20	0.05	1	0	1	0	0	0
.................................................................................................................................TTG---CT-------G-----CTGCTGTT----------------GTTGTTGCTG...............................................................	24	20	0.05	1	0	1	0	0	0
.................................................................................................................................................................................GTTGCTGCTGTTGTTGCTGTTG................................................	22	20	0.05	1	0	1	0	0	0
..................................................................................................................................................................................................................TGTTGCTGCTGCTGTT--GTTGCTGTA..........	25	20	0.05	1	0	1	0	0	0
..............................................................................................TGCTGCTGTTGT------TGTTGCTGTTG............................................................................................................................	23	20	0.05	1	0	1	0	0	0
...........................................................................................TGTTGCTGCTGTTGT------TGTTGCTG...............................................................................................................................	23	20	0.05	1	0	1	0	0	0
.......................................................................................................TGT------TGTTGCTGTTGCTGT........................................................................................................................	18	20	0.05	1	0	0	0	1	0
.....................................................................................................GTTGT------TGTTGCTGTTGCTGTTGT.....................................................................................................................	23	20	0.05	1	0	0	0	0	1
.........................................................................................................................................................................................TGTTGTTGCTGTTGC----------TGTTGCTG.............................	23	20	0.05	1	0	1	0	0	0
................................................................................................................................................................................TGTTGCTGCTGTTGTTGCTGTTGC----------T....................................	25	20	0.05	1	0	1	0	0	0
..................................................................................................................................................................................................................TGTTGCTGCTGCTGTT--GTTGCTGTTG.........	26	20	0.05	1	0	1	0	0	0
..................................................................................................GCTGTTGT------TGTTGCTGTTGCTGTT.......................................................................................................................	24	20	0.05	1	0	1	0	0	0
...................................................................................................................................................................................................GTTGC----------TGTTGCTGCTGCTGTT--G..................	22	20	0.05	1	0	0	0	1	0
................................................................................................................................................................................TGTTGCTGCTGTTGTTGCTGTTGC----------TG...................................	26	20	0.05	1	0	1	0	0	0
.........................................................................................................................TGCTGTTGTTG---CT-------G-----CTGCTGTT----------------GTTG.....................................................................	26	20	0.05	1	0	1	0	0	0
..................................................................................................................TTGCTGTTGCTGTTGTTG---................................................................................................................	18	20	0.05	1	0	0	0	1	0
........................................................................................................................TTGCTGTTGTTG---CT-------G-----CTGCTGTT----------------GT.......................................................................	25	20	0.05	1	0	1	0	0	0
.........................................................................................................................TGCTGTTGTTG---CT-------G-----CTGCTGTT----------------GTT......................................................................	25	20	0.05	1	0	1	0	0	0
...................................................................GCTGTTGTTGCTGTT----GCTG.............................................................................................................................................................	19	20	0.05	1	0	1	0	0	0

droVir3

TGC-TG--CTGCTGCTGCTGTTGT---TGTT-GC-------------TG---T---TG----TTGCTGCTGTTGTTGCTGTT----GTTGTTGCTGCTGCTGTTGT------TGTTGTTGT------TGATG---CT-------G-----TTGTTGTT-------------------GTTGTTGTTGCTGCTGTTGCTGT----------TGTTGTTGTTGTTGCT--GCTGCTGTTGCTGCTGCTG	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
.................................................................................................................GTTGTTGT------TGATG---CT-------G-----TTGT.............................................................................................	20	5	0.20	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
......................................................................................................TTGT------TGTTGTTGT------TGATG---CT-------.......................................................................................................	20	20	0.10	2	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
.............................................................................................................................................................................................................................TTGCT--GCTGCTGTTGCTG......	18	20	0.10	2	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
.........TGCTGCTGCTGTTGT---TGTT-GC-------------........................................................................................................................................................................................................	21	20	0.05	1	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
..................................................................................................GCTGTTGT------TGTTGTTGT------T.......................................................................................................................	18	20	0.05	1	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

droMoj3

TGT-TG--TTGTTGCTGCAGTTGT---CGGA-GC-------------AG---T---TG---C-TGTGGCAGCT---GTTGCT----GCTGCTGCTGCTGCTGCTG---------TTGCTGC------TGTTG---CT-------G-----------TT----------------GTTGCTGCTGTTGCTG---TTGCGGCGTTGGTCTTCTGCTGCTGCTGCTGCT--GTTGATGCTTCTGCTTCTG	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droGri2

TGT-TG--TTGCTGCTGCTGCTGC---AGTT-GT-TGTTGCAGTTGCTGCTG---------T-------TGTT---GGTGTT----GCTGCTGCTGCTGCTGCTGC------TGC---TGT------TG------TT-------G-----TTGTTGCT---------GCTG-CTGCGGCTGCTGCTGCTGTTGTTGTTGT----------TGTTGCTGCTGCTGGT--GTTGCTGTTGC-GCGACAA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
...........................................................................................................................................................GCT---------GCTG-CTGCGGCTGCTGCT.............................................................	21	20	0.05	1	1	0
......................................................................................................................................................................................TGCTGCTGTTGTTGTTGT----------T....................................	19	20	0.05	1	0	1

dsi_249

x:5372040-5372098 -

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

-25.9	-25.8