dan_1172

Name	Class	Family	Strand
Nobel_I-int	LTR	Pao	+
Nobel_LTR	LTR	Pao	+

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## AACCAAATATTCAACCAAAACAGAACTTAAGCCAAGCTTATCTTTTGCGGCGAAACGGGGCGAATTCGCAAGAGAGCACAACTGAGCTTTTATTTCGCTCCCGCTCCGCCCTATGCTAACATAGACTAGACTTCAATTTTTGCTCGACTTTTAGTTATGCTACTAATCTAATCTAATCATTCTAAACCGGCCCCGTTGAAGACCTCCATCCGGCTTCAACCAACCGGCAGCCTAGCCAGTTTATGGATCGC ****************************************************************************************..((.............(((...........((((.((((...........((..((((...))))..))......)))).)))).............)))......))**************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M044 female body	V055 head	M058 embryo	V105 male body
.............................................................................................................................................................................TAATCATTCTAAACCGGCCCCGTTGA....................................................	26	0	1	1.00	1	1	0	0	0
......................................TATCTTTTGCGGCGAAACGGG................................................................................................................................................................................................	21	0	1	1.00	1	1	0	0	0
..............CCAAAACCTAACTTAAGCGAAG.......................................................................................................................................................................................................................	22	3	2	0.50	1	0	1	0	0
..............................................................................................................................................................................................CCCCGTTGAAGACCTCCATCCGGC.....................................	24	0	4	0.25	1	1	0	0	0
..........................................................................................TATTTCGCTCCCGCTCCGCCCTATGC.......................................................................................................................................	26	0	20	0.10	2	2	0	0	0
.....AACATTCAAACAAAACAGACC.................................................................................................................................................................................................................................	21	3	10	0.10	1	0	0	1	0
..............................................................................CAACTGAGCTTTTATTTCGCTCCCGC...................................................................................................................................................	26	0	20	0.05	1	0	0	1	0
.........................................................................................TTATTGCGCTCCCGCTCCGCCCTAT.........................................................................................................................................	25	1	20	0.05	1	0	0	1	0
.............TCGAACACAGAACTTAAGC...........................................................................................................................................................................................................................	19	3	20	0.05	1	0	0	0	1

TTGGTTTATAAGTTGGTTTTGTCTTGAATTCGGTTCGAATAGAAAACGCCGCTTTGCCCCGCTTAAGCGTTCTCTCGTGTTGACTCGAAAATAAAGCGAGGGCGAGGCGGGATACGATTGTATCTGATCTGAAGTTAAAAACGAGCTGAAAATCAATACGATGATTAGATTAGATTAGTAAGATTTGGCCGGGGCAACTTCTGGAGGTAGGCCGAAGTTGGTTGGCCGTCGGATCGGTCAAATACCTAGCG **************************************************..((.............(((...........((((.((((...........((..((((...))))..))......)))).)))).............)))......))****************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M044 female body	V039 embryo	M058 embryo	V055 head	V106 head
.......ATAAGTTGGTTTTGTCTTGAATTC............................................................................................................................................................................................................................	24	0	1	1.00	1	1	0	0	0	0
........................................................CCCCGCTTAAGCGTTCTCTCGTGTTGACT......................................................................................................................................................................	29	0	2	0.50	1	1	0	0	0	0
...................................................................................................GGGCGAGGCGGGATACGATTG...................................................................................................................................	21	0	20	0.45	9	7	0	2	0	0
................................................................AAGCGTTCTCTCGTGGTGACTCGA...................................................................................................................................................................	24	1	3	0.33	1	1	0	0	0	0
...............................................................................................................................................................................................GGGTAACGTCTGGAGGTAGG........................................	20	2	6	0.17	1	0	1	0	0	0
..................................................................................................AGGGCGAGGCGGGATACGATT....................................................................................................................................	21	0	20	0.10	2	2	0	0	0	0
.......................................................................CTCTAGTCTTGACTCGAAA.................................................................................................................................................................	19	2	14	0.07	1	0	0	0	1	0
...............................................................................................................................TGTGAAGTCAAAAACGAG..........................................................................................................	18	2	17	0.06	1	0	0	1	0	0
................................................................................................CGAGGGCGAGGCGGGATACGATTG...................................................................................................................................	24	0	20	0.05	1	1	0	0	0	0
........................................................................................AAATAAAGCGAGGGCGAGGCGGGAT..........................................................................................................................................	25	0	20	0.05	1	1	0	0	0	0
...................................................................................................................................................................................................................CCGAAGTTGGTTGGCCGGCG....................	20	1	20	0.05	1	0	0	0	0	1

Species	Coordinate	ID	Alignment
droAna3	scaffold_13082:217132-217382 -	dan_1172	AACCAAATAT-----TCAAC-CAAA-ACAGA--ACTTA-AGCCAAGCTTATCTTTTG-CGGCGAA-ACGGGGCGAATTCGCAAGAGAGCACAACT--GAGCTTTTATTTCGCTCCCGC-TCCGCCCTATG-CTAACATAGACTAGACTTCAATTTT-TGCTCGAC-----TTTTAGTTATGC-----------------------------T-AC---TAATCT---------------------------------AA--T---CT-AATCATTC----------TAAACCGGCCCCGTTGAAG---------ACCTCCATCCGGCTTCAACC----------------AACCGGCAGCCTAGCCAGTTTATGGAT-CGC
droBip1	scf7180000393184:25193-25436 +		GATCTATATT-----TC---------TCTAA--TCTTA-AACCTTACTTATCTATTG-CGGTGAA-GCGGAGCGAATTCGCACAAGAGCGAATAT--GAGCT-T----TCGCTCCCGC-TCCGCCCTTAG-CTATCTTGGACTAGACTAGGCTA--------GACTTAGACT-------------------------------------T--AATTA--------ATAT-TAAAGTC--AATCAAATA---------CGA-----CG-AATCCGTT----------AACACCGGCCCCGCTGAAG---------GTCTCCATCCGGCTTCAACT----------------TACTGGCAGCCACGCCAGCTTGTGGGC-TGC
droKik1	scf7180000302132:4045-4258 +		CATTT----------TA--AACAAT-TCTAT--GCTTAGAGCCTAGCTTAACGCAGG-GGGCGAAGACGGGGCGAATTCGCA-AAGAGCGAGAGA--GAGCT-TTATTGTGCTCCCGCCTTCGCCC----------TTACACTCTACTACAAA-----------------------------------------------------------------AAATTCA--------------------------A-ATGT-----CT-CA-ACTGAGCC----------AACACCGGCCCCGTTAAAC---------GCCTGCA--CGGCTTCAACA----------------AACTGGCAGCGGCGCCAGCTTATGGAT-TGC
droFic1	scf7180000453053:770-1035 -		AACCAATGAT-CTATTCTCCAC--A-T---TATTCTTA-AGCCTAGCTTACCGAAGGTTGGCGAAGACGGAGCGAACTCGCA-GAGAGCGAACGA--AAGCT-TTATTGCGCTCCCGCCTTCGCCCTAAA-CTAACTTACAGTAAACTTCAAATTC-AAT----------TCA----------------ATCAGACTTATTTTAACAATTCAAATAA--------ACAA----------------ATA---------AAACT---GG-CTTCAGCC----------AACACCGGCCCCGTTGAAG---------GCCCATC--CGGCTTCAACA----------------AACTGGAAGCGGCGCTAATTTGTGGAT-GGC
droEle1	scf7180000491313:15052-15314 +		AATAT----------T---CAT--AAA---AGCACCTAGAGCCTAGCTTAACTGAGGTTGGCAAAGACGGGGCGAATTCGCA-AAGAGTGAGAGC--GAGCA-TCATTGTGCTCCCGCCTTTACCCTAAA-CTTACTTACTGTAAACTTCATGTTA---A-----------CAACTTC----------AAA---------------A--T--AACTT--------ACAATTACAAAATTTAAAAAATA---------AAACT---C--AATTGGCG----------AACGCCAACACCGCTGAAGGTCTGTAAGGCCTGTA--AGGTCTGAAGC----------------CATTGGAAGCAAAGCCAGGTT-CGGAT-GGC
droRho1	scf7180000772741:436-680 +		AATCAGATATTCTATACTTCGA--CAA---AGTACTTAGAGCCTAGCTTAACGAAGGTTGGCGAAGACGGGGCGACTTCGCC-GAGAGCGAGAGA--GAGCT-TTATTGTACTCCCGCCTTCGCCCTATA-CTAACTTACACTAAACTTCAAGTTTTTAT----------TTTT--------------------------------------AAC---AAATTCA--------------------------ATATGA-----TTCAAGTTTGAGCG----------AACACCGGCCCCGTTGAAC---------ACCCATC--GGGCTTCACAC----------------------AAGCGGCGCCAACTTATGAAT-GGC
droBia1	scf7180000301600:23969-24195 +		AGGCAAAAAT-----------------------TCTTAGATCCTAGCTTAACGAAAGTTGACATAGACGGGGCGAGTTCGCA-GAGAGCGAGAGA--GTACT-ATTTTTTGCACCCGCCATTGCCCTAAA-CTAACTTACACTAAACTTCAAATTT----------ATGGTCTG-----------------------------------A--ATCCA--------ACAATTT---------------------------TAT---GG-TTTCAACC----------AACACCGGAACCGTTGAAC---------GCTT--A--AGGCTTCAACC----------------TATAGGAAGCGGCGCCAGTATATGGAT-GGC
droTak1	scf7180000415234:4970-5195 -		GACTATATTT-----TCA------AAA---AGTTCTTAGAGCCTAGCTTAACGACAGTTGACGAAGACGGGGCGAATTCGCA-GAGAGCGAGAGA--GAACT-TTATTGTGCACCCGCCTTCGTCCTAAA-CTAACTTACACTAAACTTCAAACTT----------CAGTA------------------------------------------AC---AAATTCAAT-----------------------------------------AATCTCTC----------AACACCGGCCCCGTTGAAC---------GCTTC----AGGCTTCAACC----------------AATAGGAAGCGGCGCCAATTTATGAAT-GGC
droEug1	scf7180000409576:10773-10863 +		ACTGAAC------------------------------------------------------------------G---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AA--C---GG-AATGACCA----------AACACCGCCCCCTCCGAAG---------GGACGAC--GTCCTTCAGGATTG-------------TCCAGGTAGAAGCGCCAACCTATGGAT-GGC
dm3	chr2L:22350786-22350941 -		-----------------------------------------------------------------------------------------------------------------------TTCGCCTTAAA-CTAACTTACACTAGACTAAAAATGT-TGT-----------GTACTTCATAC------------------------AAAACCAATAA--------ATCA----------------CTA-----------------CAACTTCAGCCAACCTCAACCTCAACCTGGCCCGTTGATG---------GCCTCAA--CGGCTTCAACA----------------AACTGACAGCGGCACCAGCTTGTGAAT-CGC
droSim2	node_882:47-110 +		A-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGGCCCCGTTGAAC---------GCCTCCA--CGGCTTCAACA----------------AATCGGCAGCGGCGCCAGCTTGTGGAT-CGC
droYak3	3L:23920531-23920790 +		GATCTTCTAT-----TTTACAT--ATA---TGTTCTTAG-GCCTAGCTTAACAGAGGTTGGCGAAGGCGGAGCGAATTCGCA-TAGAGCGAGAGA--GAGCT-TTATTATGCTCCCGTCTTCGCCCTAAG-CTAACTTACACTAGACTTCAAATATTTTT----------TTTTCCTCATGC--------------------CAA----C--AATAA--------ACAA---TGACC--T---------AC------AATAT---GG-GCTCAGCC----------AACACCGGCCCCGTTGAAC---------GCCTCCA--CGGCTTCAACA----------------AATCGGCAGCGGCGACAGCTTGTGGATCCGC
droEre2	scaffold_4929:22601117-22601385 -		ACATATCTAT-----TTCACAA-GA-TC---ATACTTAGAGCCTAGCCTAATGGAGGTTGGCAAAGGTGGGGCGAATTAACA-ATGAGCGAGAGA--GAGCT-TTATTATGCTCCCGCCTTCGCACTAAA-CTAACTTACACTATACTTTAAAATGTTGT----------CCTTGTTCATACATCGACAAA---------------AAAACCAATAA--------ACAA----------------CTATAT------AACAT---AG-ATTCAGCT----------AACACCGTCCCCATTAAAT---------GCCTCCA--CGGCTTCAACC----------------AATTGGCAGCGGAGCCAGCTTGTGGAT-CGC
dp5	Unknown_group_125:16732-16986 +		AACTATATTT-----TCTTCACAAT-TCAAATCTCTT--ACTCTAGCTAACCTACGG-TGGCAAAG-CGGGGCGAATTCGCC-AAGAGCGAGAGAGCGAGCTTTTATTGCGCTCCCGC-TTTGCCCTAGC-CTAACTTACACTAGACTTCATAATT----------CAGATCAA-----------------------------------T--AATTA--------ATAATTGTGGCC--A---------TG------GA---TGGAA-GGTCACGC----------AACACCGGCCCCGTTGAAC---------GCCTGCAT-CGGCTTCAACA----------------CATTGGCAGCGGCGCTAATTTGTGTAT-GGG
droPer2	scaffold_175:22822-23076 -		AACTATATTT-----TCTTCACAAT-TCAAATCTCTT--ACTCTAGCTAACCTACGG-TGGCAAAG-CGGGGCGAATTCGCC-AAGAGCGAGAGAGCGAGCTTTTATTGCGCTCCCGC-TTTGCCCTAGC-CTAACTTACACTAGACTTCATAATT----------CAGATCTA-----------------------------------T--AACTA--------ATAATTGTGGCC--A---------TG------GA---TGTAA-GGTCACGC----------AACACCGGCCCCGTTGAAC---------GCCTGCAT-CGGCTTCAACA----------------CATTGGGAGCGGCGCTAATTTGTGTAT-GGG
droWil2	scf2_1100000004958:495687-495751 +		A-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGGCCCCCTTGGAG---------GGCTATAA-GGCCTTCAAAA----------------AATCGGCAAGGGTGCCAATTTGTGGAT-CGC
droVir3	scaffold_12958:3078606-3078836 -		GACAA----------------------CTAA--ACTTA-AGCCTACATTAAGCTAACGCGGCGAG-GCAAGGCAAATCGCTC-CAAAGCGACTGATAAAGCT-TTATTGCGCTCTCGA-AGCGCCCTAAACCCAACACACACTAGACTTTATGTTT----------CATATTAA-----------------------------------T----TTTTTAATTCA--------------------------ATG-CG-----C--GGACCTGTGCC----------AACACCGGCCACCATGAAG---------CGCTTGG--GGGCTTCGTTC----------------CATGGGTATCCAAGCCAACTTGTGGAT-CGG
droMoj3	scaffold_1821:6856-6955 -		ATATATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCGCGTTGAAA---------GGCCGCA--GGGCTTCAATAATATGGGGTATTAGTTGAGTGGCAGTGGGGCAACACGATGAAT-TGC

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droAna3

AACCAAATAT-----TCAAC-CAAA-ACAGA--ACTTA-AGCCAAGCTTATCTTTTG-CGGCGAA-ACGGGGCGAATTCGCAAGAGAGCACAACT--GAGCTTTTATTTCGCTCCCGC-TCCGCCCTATG-CTAACATAGACTAGACTTCAATTTT-TGCTCGAC-----TTTTAGTTATGC-----------------------------T-AC---TAATCT---------------------------------AA--T---CT-AATCATTC----------TAAACCGGCCCCGTTGAAG---------ACCTCCATCCGGCTTCAACC----------------AACCGGCAGCCTAGCCAGTTTATGGAT-CGC	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
..........................................................................................................................................................................................................................................................................T-AATCATTC----------TAAACCGGCCCCGTTGA..............................................................................	26	1	1.00	1	1	0	0	0	0	0
................................................TATCTTTTG-CGGCGAA-ACGGG......................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................CCCCGTTGAAG---------ACCTCCATCCGGC......................................................	24	4	0.25	1	1	0	0	0	0	0
........................................................................................................TATTTCGCTCCCGC-TCCGCCCTATG-C.........................................................................................................................................................................................................................................................	26	20	0.10	2	2	0	0	0	0	0
..........................................................................................CAACT--GAGCTTTTATTTCGCTCCCGC-......................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0

droBip1

GATCTATATT-----TC---------TCTAA--TCTTA-AACCTTACTTATCTATTG-CGGTGAA-GCGGAGCGAATTCGCACAAGAGCGAATAT--GAGCT-T----TCGCTCCCGC-TCCGCCCTTAG-CTATCTTGGACTAGACTAGGCTA--------GACTTAGACT-------------------------------------T--AATTA--------ATAT-TAAAGTC--AATCAAATA---------CGA-----CG-AATCCGTT----------AACACCGGCCCCGCTGAAG---------GTCTCCATCCGGCTTCAACT----------------TACTGGCAGCCACGCCAGCTTGTGGGC-TGC	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CATTT----------TA--AACAAT-TCTAT--GCTTAGAGCCTAGCTTAACGCAGG-GGGCGAAGACGGGGCGAATTCGCA-AAGAGCGAGAGA--GAGCT-TTATTGTGCTCCCGCCTTCGCCC----------TTACACTCTACTACAAA-----------------------------------------------------------------AAATTCA--------------------------A-ATGT-----CT-CA-ACTGAGCC----------AACACCGGCCCCGTTAAAC---------GCCTGCA--CGGCTTCAACA----------------AACTGGCAGCGGCGCCAGCTTATGGAT-TGC	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AACCAATGAT-CTATTCTCCAC--A-T---TATTCTTA-AGCCTAGCTTACCGAAGGTTGGCGAAGACGGAGCGAACTCGCA-GAGAGCGAACGA--AAGCT-TTATTGCGCTCCCGCCTTCGCCCTAAA-CTAACTTACAGTAAACTTCAAATTC-AAT----------TCA----------------ATCAGACTTATTTTAACAATTCAAATAA--------ACAA----------------ATA---------AAACT---GG-CTTCAGCC----------AACACCGGCCCCGTTGAAG---------GCCCATC--CGGCTTCAACA----------------AACTGGAAGCGGCGCTAATTTGTGGAT-GGC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AATAT----------T---CAT--AAA---AGCACCTAGAGCCTAGCTTAACTGAGGTTGGCAAAGACGGGGCGAATTCGCA-AAGAGTGAGAGC--GAGCA-TCATTGTGCTCCCGCCTTTACCCTAAA-CTTACTTACTGTAAACTTCATGTTA---A-----------CAACTTC----------AAA---------------A--T--AACTT--------ACAATTACAAAATTTAAAAAATA---------AAACT---C--AATTGGCG----------AACGCCAACACCGCTGAAGGTCTGTAAGGCCTGTA--AGGTCTGAAGC----------------CATTGGAAGCAAAGCCAGGTT-CGGAT-GGC	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AATCAGATATTCTATACTTCGA--CAA---AGTACTTAGAGCCTAGCTTAACGAAGGTTGGCGAAGACGGGGCGACTTCGCC-GAGAGCGAGAGA--GAGCT-TTATTGTACTCCCGCCTTCGCCCTATA-CTAACTTACACTAAACTTCAAGTTTTTAT----------TTTT--------------------------------------AAC---AAATTCA--------------------------ATATGA-----TTCAAGTTTGAGCG----------AACACCGGCCCCGTTGAAC---------ACCCATC--GGGCTTCACAC----------------------AAGCGGCGCCAACTTATGAAT-GGC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AGGCAAAAAT-----------------------TCTTAGATCCTAGCTTAACGAAAGTTGACATAGACGGGGCGAGTTCGCA-GAGAGCGAGAGA--GTACT-ATTTTTTGCACCCGCCATTGCCCTAAA-CTAACTTACACTAAACTTCAAATTT----------ATGGTCTG-----------------------------------A--ATCCA--------ACAATTT---------------------------TAT---GG-TTTCAACC----------AACACCGGAACCGTTGAAC---------GCTT--A--AGGCTTCAACC----------------TATAGGAAGCGGCGCCAGTATATGGAT-GGC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

GACTATATTT-----TCA------AAA---AGTTCTTAGAGCCTAGCTTAACGACAGTTGACGAAGACGGGGCGAATTCGCA-GAGAGCGAGAGA--GAACT-TTATTGTGCACCCGCCTTCGTCCTAAA-CTAACTTACACTAAACTTCAAACTT----------CAGTA------------------------------------------AC---AAATTCAAT-----------------------------------------AATCTCTC----------AACACCGGCCCCGTTGAAC---------GCTTC----AGGCTTCAACC----------------AATAGGAAGCGGCGCCAATTTATGAAT-GGC	Size	Hit Count	Total Norm	Total
No Reads

droEug1

ACTGAAC------------------------------------------------------------------G---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AA--C---GG-AATGACCA----------AACACCGCCCCCTCCGAAG---------GGACGAC--GTCCTTCAGGATTG-------------TCCAGGTAGAAGCGCCAACCTATGGAT-GGC	Size	Hit Count	Total Norm	Total
No Reads

dm3

-----------------------------------------------------------------------------------------------------------------------TTCGCCTTAAA-CTAACTTACACTAGACTAAAAATGT-TGT-----------GTACTTCATAC------------------------AAAACCAATAA--------ATCA----------------CTA-----------------CAACTTCAGCCAACCTCAACCTCAACCTGGCCCGTTGATG---------GCCTCAA--CGGCTTCAACA----------------AACTGACAGCGGCACCAGCTTGTGAAT-CGC	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
...............................................................................................................................................................................................................................................................................................................................AA--CGGCTTCAACA----------------AACTGACAGCGGC..................	26	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................CAATAA--------ATCA----------------CTA-----------------CAACTTCAGCCAAC......................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...............................................................................................................................................................................................................................................................................................................................AA--CGGCTTCAACA----------------AACTGACAGCGGCT.................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................................................................................................................................................................................................................................................................................................TGACAGCGGCACCAGCTTGTGAAT-C..	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................................................................................................................................................................ATCA----------------CTA-----------------CAACTTCAGCCAACCTCAACC...............................................................................................	28	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..................................................................................................................................................................................................................CCAATAA--------ATCA----------------CTA-----------------CAACTTCAGCC.........................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droSim2

A-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGGCCCCGTTGAAC---------GCCTCCA--CGGCTTCAACA----------------AATCGGCAGCGGCGCCAGCTTGTGGAT-CGC

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

No Reads

droYak3

GATCTTCTAT-----TTTACAT--ATA---TGTTCTTAG-GCCTAGCTTAACAGAGGTTGGCGAAGGCGGAGCGAATTCGCA-TAGAGCGAGAGA--GAGCT-TTATTATGCTCCCGTCTTCGCCCTAAG-CTAACTTACACTAGACTTCAAATATTTTT----------TTTTCCTCATGC--------------------CAA----C--AATAA--------ACAA---TGACC--T---------AC------AATAT---GG-GCTCAGCC----------AACACCGGCCCCGTTGAAC---------GCCTCCA--CGGCTTCAACA----------------AATCGGCAGCGGCGACAGCTTGTGGATCCGC	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
.........................................................................................................................................................................................................................................................................................................................................CAACA----------------AATCGGCAGCGGCGACAGCTTG.........	27	2	5.00	10	0	10	0	0	0	0	0	0	0	0	0
...........................................TAGCTTAACAGAGGTTGGCGAAGGC.........................................................................................................................................................................................................................................................................................................................	25	20	4.95	99	0	44	46	7	0	0	0	0	0	0	2
.................................................................................................................................................................................................................C--AATAA--------ACAA---TGACC--T---------AC------AATAT---GG-GC...............................................................................................................	27	1	4.00	4	0	4	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................C--AATAA--------ACAA---TGACC--T---------AC------AATAT---GG-G................................................................................................................	26	1	3.00	3	0	3	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................CAACA----------------AATCGGCAGCGGCGACAGC............	24	2	2.50	5	0	1	4	0	0	0	0	0	0	0	0
...........................................TAGCTTAACAGAGGTTGGCGAAGG..........................................................................................................................................................................................................................................................................................................................	24	20	2.40	48	0	19	14	3	0	0	0	0	0	0	12
...............................................................................................................................................................................................................................................T---------AC------AATAT---GG-GCTCAGCC----------AACACCGGC......................................................................................	27	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................CAACA----------------AATCGGCAGCGGCGACAGCT...........	25	2	2.00	4	0	3	1	0	0	0	0	0	0	0	0
.......................................................................................................TTATTATGCTCCCGTCTTCGCCCTAAG-C.........................................................................................................................................................................................................................................................	28	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................CAACA----------------AATCGGCAGCGGCGACAG.............	23	2	2.00	4	0	3	0	0	0	0	1	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................TTCAACA----------------AATCGGCAGCGGCGACAG.............	25	2	2.00	4	0	0	0	1	0	0	0	0	0	0	3
................................................TAACAGAGGTTGGCGAAGGCGG.......................................................................................................................................................................................................................................................................................................................	22	20	1.05	21	0	5	16	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................T---------AC------AATAT---GG-GCTCAGCC----------AACACCGGCC.....................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................CAACA----------------AATCGGCAGCGGCGACAGCTT..........	26	2	1.00	2	0	1	0	0	0	0	1	0	0	0	0
.......................................................................................................TTATTATGCTCCCGTCTTCGCCCTA.............................................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................TCCTCATGC--------------------CAA----C--AATAA--------ACAA---TGACC--..............................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................C--AATAA--------ACAA---TGACC--T---------AC------AATAT---G...................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
................................................TAACAGAGGTTGGCGAAGGCGGAGC....................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................C--AATAA--------ACAA---TGACC--T---------AC------AATAT---GG-GCT..............................................................................................................	28	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
.......TAT-----TTTACAT--ATA---TGTTCTTAG-GCC..................................................................................................................................................................................................................................................................................................................................................	25	20	1.00	20	1	1	18	0	0	0	0	0	0	0	0
............................................................................TTCGCA-TAGAGCGAGAGA--GAGC........................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
...........................................TAGCTTAACAGAGGTTGGCGAAGGCGG.......................................................................................................................................................................................................................................................................................................................	27	20	0.95	19	0	10	9	0	0	0	0	0	0	0	0
...........................................TAGCTTAACAGAGGTTGGCGAAGGCG........................................................................................................................................................................................................................................................................................................................	26	20	0.85	17	0	13	4	0	0	0	0	0	0	0	0
...............................GTTCTTAG-GCCTAGCTTAACAGAGGT...................................................................................................................................................................................................................................................................................................................................	26	20	0.55	11	0	0	0	0	0	0	0	0	0	0	11
.........................................................................................................................................................................................................................................................................................................................................CAACA----------------AATCGGCAGCGGCGACA..............	22	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................CA--CGGCTTCAACA----------------AATCGGCAGCGG...................	25	20	0.50	10	0	0	0	0	0	0	0	0	0	0	10
.........................................................................................................................................................................................................................................................................................................................................CAACA----------------AATCGGCAGCGGCGACAC.............	23	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................TTCAACA----------------AATCGGCAGCGGCGAC...............	23	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................TCAACA----------------AATCGGCAGCGGCGACAG.............	24	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................................TCGGCAGCGGCGACAGCTTGTGGA.....	24	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................CAACA----------------AATCGGCAGCGGCGACAGCTA..........	26	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................TCAACA----------------AATCGGCAGCGGCGACAGC............	25	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0
................................................TAACAGAGGTTGGCGAAGGC.........................................................................................................................................................................................................................................................................................................................	20	20	0.45	9	0	1	8	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................TCCA--CGGCTTCAACA----------------AATCGGCAGC.....................	25	20	0.40	8	0	3	0	0	0	0	0	0	0	0	5
..............................................................................................................................................................................................................................................................................TCAGCC----------AACACCGGCCCCGTTGAAC---------GCC................................................................	28	20	0.35	7	0	5	2	0	0	0	0	0	0	0	0
.......TAT-----TTTACAT--ATA---TGTTCTTAG-GCCT.................................................................................................................................................................................................................................................................................................................................................	26	20	0.30	6	0	2	4	0	0	0	0	0	0	0	0
.................TACAT--ATA---TGTTCTTAG-GCCTAGCT.............................................................................................................................................................................................................................................................................................................................................	25	20	0.30	6	0	3	3	0	0	0	0	0	0	0	0
................................................TAACAGAGGTTGGCGAAGGCG........................................................................................................................................................................................................................................................................................................................	21	20	0.20	4	0	1	2	1	0	0	0	0	0	0	0
...............................................TTAACAGAGGTTGGCGAAGGCGG.......................................................................................................................................................................................................................................................................................................................	23	20	0.20	4	0	1	2	1	0	0	0	0	0	0	0
............................................AGCTTAACAGAGGTTGGCGAAGGC.........................................................................................................................................................................................................................................................................................................................	24	20	0.20	4	0	4	0	0	0	0	0	0	0	0	0
.........T-----TTTACAT--ATA---TGTTCTTAG-GCCTAGCT.............................................................................................................................................................................................................................................................................................................................................	28	17	0.18	3	0	1	2	0	0	0	0	0	0	0	0
.................TACAT--ATA---TGTTCTTAG-GCCTAGCC.............................................................................................................................................................................................................................................................................................................................................	25	20	0.15	3	0	0	3	0	0	0	0	0	0	0	0
.....................T--ATA---TGTTCTTAG-GCCTAGCTTAACA........................................................................................................................................................................................................................................................................................................................................	26	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
...........................................TAGCTTAACAGAGGTTGGCGAAGGG.........................................................................................................................................................................................................................................................................................................................	25	20	0.10	2	0	0	1	1	0	0	0	0	0	0	0
..............................TGTTCTTAG-GCCTAGCTTAACAGAGG....................................................................................................................................................................................................................................................................................................................................	26	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
....................................TAG-GCCTAGCTTAACAGAGGTTGGC...............................................................................................................................................................................................................................................................................................................................	25	20	0.10	2	0	0	2	0	0	0	0	0	0	0	0
...............TTTACAT--ATA---TGTTCTTAG-GCC..................................................................................................................................................................................................................................................................................................................................................	22	20	0.10	2	0	0	2	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................CCA--CGGCTTCAACA----------------AATCGGCAGC.....................	24	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................TCCA--CGGCTTCAACA----------------AATCGGCAGCGG...................	27	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................AGCC----------AACACCGGCCCCGTTGAAC---------GCC................................................................	26	20	0.10	2	0	1	1	0	0	0	0	0	0	0	0
................................TTCTTAG-GCCTAGCTTAACAGAGGTT..................................................................................................................................................................................................................................................................................................................................	26	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
.................TACAT--ATA---TGTTCTTAG-GCCTAGCTT............................................................................................................................................................................................................................................................................................................................................	26	20	0.10	2	0	0	2	0	0	0	0	0	0	0	0
...............TTTACAT--ATA---TGTTCTTAG-GCCTAGCT.............................................................................................................................................................................................................................................................................................................................................	27	20	0.10	2	0	1	0	1	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TCAGCC----------AACACCGGCCCCGTTGAAC---------G..................................................................	26	20	0.10	2	0	2	0	0	0	0	0	0	0	0	0
.........T-----TTTACAT--ATA---TGTTCTTAG-GCCTAGC..............................................................................................................................................................................................................................................................................................................................................	27	19	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.......TAT-----TTTACAT--ATA---TGTTCTTAG-GCCTAGC..............................................................................................................................................................................................................................................................................................................................................	29	19	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CAGCC----------AACACCGGCCCCGTT................................................................................	20	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................TCCA--CGGCTTCAACA----------------AATCGGCAGCG....................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
....................AT--ATA---TGTTCTTAG-GCCC.................................................................................................................................................................................................................................................................................................................................................	18	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
.....................T--ATA---TGTTCTTAG-GCCTAGCTTAACAGA......................................................................................................................................................................................................................................................................................................................................	28	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...........................................TAGCTTAACAGAGGTTGGCGAA............................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
................TTACAT--ATA---TGTTCTTAG-GCCT.................................................................................................................................................................................................................................................................................................................................................	22	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
.................................TCTTAG-GCCTAGCTTAACAGAGGT...................................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................CAACA----------------AATCGGCAGCGGCG.................	19	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
............................................AGCTTAACAGAGGTTGGCGAAGG..........................................................................................................................................................................................................................................................................................................................	23	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
................TTACAT--ATA---TGTTCTTAG-GCCTAGC..............................................................................................................................................................................................................................................................................................................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
.................................................AACAGAGGTTGGCGAAGGCG........................................................................................................................................................................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
................................................................................................................................................................................................................................................................................................................C---------GCCTCCA--CGGCTTCAACA----------------AATCGGCA.......................	27	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
........AT-----TTTACAT--ATA---TGTTCTTAG-GCC..................................................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
...............................................TTAACAGAGGTTGGCGAAGGC.........................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................GCC----------AACACCGGCCCCGTTGAAC---------GCC................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
................TTACAT--ATA---TGTTCTTAG-GCCTAGCT.............................................................................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TCAGCC----------AACACCGGCCCCGTTGAAC---------...................................................................	25	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0
.................................................AACAGAGGTTGGCGAAGGC.........................................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
............................................AGCTTAACAGAGGTTGGCGAAGGCG........................................................................................................................................................................................................................................................................................................................	25	20	0.05	1	0	0	1	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................CA--CGGCTTCAACA----------------AATCGGCAGCGA...................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	1

droEre2

ACATATCTAT-----TTCACAA-GA-TC---ATACTTAGAGCCTAGCCTAATGGAGGTTGGCAAAGGTGGGGCGAATTAACA-ATGAGCGAGAGA--GAGCT-TTATTATGCTCCCGCCTTCGCACTAAA-CTAACTTACACTATACTTTAAAATGTTGT----------CCTTGTTCATACATCGACAAA---------------AAAACCAATAA--------ACAA----------------CTATAT------AACAT---AG-ATTCAGCT----------AACACCGTCCCCATTAAAT---------GCCTCCA--CGGCTTCAACC----------------AATTGGCAGCGGAGCCAGCTTGTGGAT-CGC	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
.......TAT-----TTCACAA-GA-TC---ATACTTAGAGCC..................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	1	0	0	0	0	0	0
...........................................................................................................................................CACTATACTTTAAAATGTTGT----------CCTTG..............................................................................................................................................................................................................	26	1	1.00	1	1	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TCAGCT----------AACACCGTCCCCATTAAAT---------GCC................................................................	28	1	1.00	1	1	0	0	0	0	0	0
.....TCTAT-----TTCACAA-GA-TC---ATACT.........................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0	0
............................................................................TTAACA-ATGAGCGAGAGA--GAGCT-TTA...................................................................................................................................................................................................................................................................................	26	1	1.00	1	1	0	0	0	0	0	0
...................................................TGGAGGTTGGCAAAGGTG........................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	1	0	0	0	0	0	0
.............................................................................................................TGCTCCCGCCTTCGCACTAAA-CTAACT....................................................................................................................................................................................................................................................	27	2	0.50	1	1	0	0	0	0	0	0

dp5

AACTATATTT-----TCTTCACAAT-TCAAATCTCTT--ACTCTAGCTAACCTACGG-TGGCAAAG-CGGGGCGAATTCGCC-AAGAGCGAGAGAGCGAGCTTTTATTGCGCTCCCGC-TTTGCCCTAGC-CTAACTTACACTAGACTTCATAATT----------CAGATCAA-----------------------------------T--AATTA--------ATAATTGTGGCC--A---------TG------GA---TGGAA-GGTCACGC----------AACACCGGCCCCGTTGAAC---------GCCTGCAT-CGGCTTCAACA----------------CATTGGCAGCGGCGCTAATTTGTGTAT-GGG	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
........TT-----TCTTCACAAT-TCAAATCTCTT--ACTC..................................................................................................................................................................................................................................................................................................................................................	27	20	77.15	1543	0	1235	247	0	12	0	0	46	3	0
........TT-----TCTTCACAAT-TCAAATCTCTT--ACT...................................................................................................................................................................................................................................................................................................................................................	26	20	18.75	375	0	276	95	0	1	0	0	0	3	0
....................ACAAT-TCAAATCTCTT--ACTCTAGC..............................................................................................................................................................................................................................................................................................................................................	24	20	14.35	287	0	274	0	0	0	0	0	0	13	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GG...............................................................................................................	23	20	13.55	271	0	209	9	0	14	0	16	21	2	0
...........................................................................................................................................................................................................................................CC--A---------TG------GA---TGGAA-GGTCACGC----------AACAC..........................................................................................	25	20	11.75	235	0	204	20	0	11	0	0	0	0	0
........TT-----TCTTCACAAT-TCAAATCTCTT--AC....................................................................................................................................................................................................................................................................................................................................................	25	20	10.65	213	0	160	33	0	2	0	0	16	2	0
..................TCACAAT-TCAAATCTCTT--ACTCTAGC..............................................................................................................................................................................................................................................................................................................................................	26	20	9.90	198	0	140	32	0	0	0	0	0	26	0
.......................................................................................................................................................................................................................TA--------ATAATTGTGGCC--A---------TG------GA---TGGAA-GG...............................................................................................................	26	20	9.85	197	0	112	5	0	1	0	9	51	19	0
....................ACAAT-TCAAATCTCTT--ACTCTAG...............................................................................................................................................................................................................................................................................................................................................	23	20	8.10	162	0	48	0	0	0	0	0	114	0	0
...............................................TAACCTACGG-TGGCAAAG-CGGG......................................................................................................................................................................................................................................................................................................................	22	20	7.55	151	0	139	2	0	1	0	3	1	5	0
...........................................................................................................................................................................................................................................CC--A---------TG------GA---TGGAA-GGTCACGC----------AACA...........................................................................................	24	20	7.15	143	0	123	7	0	11	0	2	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-G................................................................................................................	22	20	6.75	135	0	112	2	0	4	0	1	7	9	0
...............................................TAACCTACGG-TGGCAAAG-CGG.......................................................................................................................................................................................................................................................................................................................	21	20	6.00	120	0	99	2	0	1	0	1	5	12	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GGT..............................................................................................................	24	20	5.70	114	0	69	11	0	12	0	10	9	3	0
.........T-----TCTTCACAAT-TCAAATCTCTT--ACTC..................................................................................................................................................................................................................................................................................................................................................	26	20	5.60	112	0	110	1	0	1	0	0	0	0	0
...............................................TAACCTACGG-TGGCAAAG-CGGGG.....................................................................................................................................................................................................................................................................................................................	23	20	5.55	111	0	102	0	2	0	1	3	0	3	0
....................ACAAT-TCAAATCTCTT--ACTCTAGCTA............................................................................................................................................................................................................................................................................................................................................	26	20	5.35	107	0	0	1	0	0	0	3	100	3	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCACG..........................................................................................................	22	20	5.15	103	0	97	2	0	0	1	0	3	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCACGC----------AA.............................................................................................	25	20	4.85	97	0	91	1	0	2	0	0	3	0	0
......................................................................................................................................................................................................................................................................TGGAA-GGTCACGC----------AACACCGGCC.....................................................................................	23	20	4.85	97	0	74	22	0	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................G------GA---TGGAA-GGTCACGC----------AACACCGG.......................................................................................	24	20	4.75	95	0	87	0	0	5	0	3	0	0	0
........................................................................................................................................TTACACTAGACTTCATAATT----------CAGATCAA-----------------------------------............................................................................................................................................................................	28	8	4.50	36	0	36	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................TGGAA-GGTCACGC----------AACACCGG.......................................................................................	21	20	4.50	90	0	90	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................CC--A---------TG------GA---TGGAA-GGTCACGC----------AAC............................................................................................	23	20	4.15	83	0	57	0	0	19	0	7	0	0	0
.............................................................................TCGCC-AAGAGCGAGAGAGCGAGC........................................................................................................................................................................................................................................................................................	23	20	4.10	82	0	78	0	2	2	0	0	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GGTC.............................................................................................................	25	20	3.45	69	0	44	8	0	6	0	9	1	1	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCACGC----------A..............................................................................................	24	20	3.25	65	0	61	1	0	0	0	2	1	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCACGC----------AAC............................................................................................	26	20	3.25	65	0	56	3	0	3	0	3	0	0	0
..........................................................................................................................................................................................................................................................G------GA---TGGAA-GGTCACGC----------AACACCGGC......................................................................................	25	20	3.10	62	0	55	2	0	5	0	0	0	0	0
..........................................................................................................................................................TT----------CAGATCAA-----------------------------------T--AATTA--------ATAATTG.....................................................................................................................................................	23	1	3.00	3	0	2	0	0	0	0	0	1	0	0
...........................................................................................................................................................................................................................................CC--A---------TG------GA---TGGAA-GGTCACGC----------AACACC.........................................................................................	26	20	3.00	60	0	45	9	0	2	0	4	0	0	0
........................................................................................................................................................................................................................................................................................................................................TCAACA----------------CATTGGCAGCGGCGCT...............	22	1	3.00	3	0	3	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................TCAACA----------------CATTGGCAGCGGCGCTA..............	23	1	3.00	3	0	3	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCACGC----------...............................................................................................	23	20	2.95	59	0	45	5	0	3	0	0	2	4	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-.................................................................................................................	21	20	2.90	58	0	48	3	0	5	0	2	0	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCACGC----------AACA...........................................................................................	27	20	2.65	53	0	48	1	0	2	0	0	0	2	0
....................ACAAT-TCAAATCTCTT--ACTCTAGCT.............................................................................................................................................................................................................................................................................................................................................	25	20	2.55	51	0	32	0	0	0	0	0	18	1	0
.........................................................................................................................................................................................................................................................TG------GA---TGGAA-GGTCACGC----------AACACCGG.......................................................................................	25	20	2.50	50	0	41	0	0	0	0	3	6	0	0
...................CACAAT-TCAAATCTCTT--ACTCTAGC..............................................................................................................................................................................................................................................................................................................................................	25	20	2.45	49	0	25	0	0	0	0	0	22	2	0
...............................................TAACCTACGG-TGGCAAAG-CGGGGC....................................................................................................................................................................................................................................................................................................................	24	20	2.40	48	0	47	0	0	0	0	0	1	0	0
.............................................................................TCGCC-AAGAGCGAGAGAGCGAG.........................................................................................................................................................................................................................................................................................	22	20	2.35	47	0	46	1	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................TA--------ATAATTGTGGCC--A---------TG------GA---TGGAA-G................................................................................................................	25	20	2.30	46	0	27	0	0	5	0	1	7	6	0
...........................................................................................................................................................................................................................................CC--A---------TG------GA---TGGAA-GGTCACGC----------AACACA.........................................................................................	26	20	2.20	44	0	43	0	0	1	0	0	0	0	0
..................TCACAAT-TCAAATCTCTT--ACTCTAG...............................................................................................................................................................................................................................................................................................................................................	25	20	2.15	43	0	19	0	0	0	0	0	0	24	0
.........................................................................................................................................................................................................................................................TG------GA---TGGAA-GGTCACGC----------AACACCG........................................................................................	24	20	2.15	43	0	41	0	0	1	0	1	0	0	0
..................TCACAAT-TCAAATCTCTT--ACTCTAGCT.............................................................................................................................................................................................................................................................................................................................................	27	20	2.05	41	0	8	1	0	0	0	0	32	0	0
........................................................................................................................................................................................................................................................................................................................................TCAACA----------------CATTGGCAGCGGCGCTAATT...........	26	1	2.00	2	0	2	0	0	0	0	0	0	0	0
..................TCACAAT-TCAAATCTCTT--ACTCTAGCTA............................................................................................................................................................................................................................................................................................................................................	28	20	1.95	39	0	27	3	0	0	0	0	0	9	0
.....................CAAT-TCAAATCTCTT--ACTCTAGCTA............................................................................................................................................................................................................................................................................................................................................	25	20	1.90	38	0	18	0	0	0	0	0	20	0	0
..........................................................................................................................................................................................................................................................G------GA---TGGAA-GGTCACGC----------AACACCG........................................................................................	23	20	1.90	38	0	37	0	0	1	0	0	0	0	0
...............TCTTCACAAT-TCAAATCTCTT--ACTC..................................................................................................................................................................................................................................................................................................................................................	25	20	1.80	36	0	29	3	0	0	0	1	3	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCACGC----------AACAC..........................................................................................	28	14	1.79	25	0	25	0	0	0	0	0	0	0	0
........TT-----TCTTCACAAT-TCAAATCTCTT--A.....................................................................................................................................................................................................................................................................................................................................................	24	20	1.65	33	0	32	1	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TCACGC----------AACACCGGCCCCGTTGAAC---------...................................................................	25	20	1.50	30	0	20	7	0	1	0	0	0	2	0
............................................................................................................................................................................................................................................C--A---------TG------GA---TGGAA-GGTCACGC----------AACAC..........................................................................................	24	20	1.50	30	0	28	1	0	0	0	1	0	0	0
......................................................................................................................................................................................................................................................................TGGAA-GGTCACGC----------AACACCGGCCC....................................................................................	24	20	1.45	29	0	22	7	0	0	0	0	0	0	0
............................................................................TTCGCC-AAGAGCGAGAGAGCGAGCT.......................................................................................................................................................................................................................................................................................	25	20	1.40	28	0	28	0	0	0	0	0	0	0	0
.....................CAAT-TCAAATCTCTT--ACTCTAGC..............................................................................................................................................................................................................................................................................................................................................	23	20	1.40	28	0	26	0	0	0	0	0	2	0	0
........................................................................................................................................TTACACTAGACTTCATAATT----------CAGATCA................................................................................................................................................................................................................	27	8	1.38	11	0	11	0	0	0	0	0	0	0	0
.................................................ACCTACGG-TGGCAAAG-CGGG......................................................................................................................................................................................................................................................................................................................	20	20	1.30	26	0	26	0	0	0	0	0	0	0	0
....................................................................................................................................TAACTTACACTAGACTTCATAATT----------CAGA...................................................................................................................................................................................................................	28	13	1.23	16	0	12	0	0	0	0	0	3	1	0
.........................................................................................................................................................................................................................................GGCC--A---------TG------GA---TGGAA-GGTCACGC----------AACAC..........................................................................................	27	14	1.21	17	0	16	1	0	0	0	0	0	0	0
....................................................TACGG-TGGCAAAG-CGGGGCGAAT................................................................................................................................................................................................................................................................................................................	23	20	1.10	22	0	0	1	0	0	0	1	20	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GGTCA............................................................................................................	26	20	1.10	22	0	16	1	0	4	0	1	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGA...................................................................................................................	20	20	1.10	22	0	16	1	0	3	0	2	0	0	0
..............................................................................................................................................................................................................................................................................TCACGC----------AACACCGGCCCCGTTGAAC---------G..................................................................	26	20	1.10	22	0	21	1	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................TG------GA---TGGAA-GGTCACGC----------AACACCGGC......................................................................................	26	20	1.10	22	0	15	0	0	3	0	0	2	2	0
...................................................................................................................................................................................................................................AATTGTGGCC--A---------TG------GA---TGGAA-GG...............................................................................................................	22	20	1.00	20	0	20	0	0	0	0	0	0	0	0
..........................................................................................................................................................TT----------CAGATCAA-----------------------------------T--AATTA--------ATAATTGTGGCC--..............................................................................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.............................................................................TCGCC-AAGAGCGAGAGAGCGA..........................................................................................................................................................................................................................................................................................	21	20	1.00	20	0	20	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGG....................................................................................................................	19	20	1.00	20	0	19	0	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................TCAACA----------------CATTGGCAGCGGCGCTAA.............	24	1	1.00	1	0	0	0	0	0	0	0	1	0	0
........................................................................................................................................................................................................................................................................................................................................TCAACA----------------CATTGGCAGCGGCGCTAAT............	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0
................................................AACCTACGG-TGGCAAAG-CGGG......................................................................................................................................................................................................................................................................................................................	21	20	0.95	19	0	17	0	0	1	0	0	0	1	0
...................................................................................................................................................................................................................................AATTGTGGCC--A---------TG------GA---TGGAA-G................................................................................................................	21	20	0.95	19	0	18	0	0	0	0	0	0	1	0
..........................................................................................................................................................................................................................................................G------GA---TGGAA-GGTCACGC----------AACACCGGCC.....................................................................................	26	20	0.95	19	0	17	2	0	0	0	0	0	0	0
........TT-----TCTTCACAAT-TCAAATCTCTT--ACTCT.................................................................................................................................................................................................................................................................................................................................................	28	20	0.90	18	0	16	2	0	0	0	0	0	0	0
....................................................................................................................................TAACTTACACTAGACTTCATAATT----------CA.....................................................................................................................................................................................................................	26	20	0.85	17	0	15	0	0	1	0	0	0	1	0
..........................................................TGGCAAAG-CGGGGCGAATTCGCC-AAG.......................................................................................................................................................................................................................................................................................................	26	20	0.85	17	0	17	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................TA--------ATAATTGTGGCC--A---------TG------GA---TG.....................................................................................................................	21	20	0.80	16	0	13	0	0	2	0	0	1	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-AA...............................................................................................................	23	20	0.80	16	0	14	0	0	1	0	1	0	0	0
.................TTCACAAT-TCAAATCTCTT--ACTCTAGC..............................................................................................................................................................................................................................................................................................................................................	27	20	0.80	16	0	0	0	0	0	0	0	16	0	0
........................................................................................................................................................................................................................A--------ATAATTGTGGCC--A---------TG------GA---TGGAA-GG...............................................................................................................	25	20	0.80	16	0	10	0	0	0	0	2	0	4	0
.........................................................................................................................................................................................................................................GGCC--A---------TG------GA---TGGAA-GGTCACGC----------AA.............................................................................................	24	20	0.75	15	0	15	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................CC--A---------TG------GA---TGGAA-GGTCACGC----------AACACCGG.......................................................................................	28	20	0.75	15	0	15	0	0	0	0	0	0	0	0
................................................AACCTACGG-TGGCAAAG-CGGGG.....................................................................................................................................................................................................................................................................................................................	22	20	0.75	15	0	15	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................TG------GA---TGGAA-GGTCACGC----------AACACC.........................................................................................	23	20	0.75	15	0	10	2	0	1	0	1	0	1	0
.............................................................................TCGCC-AAGAGCGAGAGAGCG...........................................................................................................................................................................................................................................................................................	20	20	0.75	15	0	15	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TCACGC----------AACACCGGCCCCGTTGAAC---------GCC................................................................	28	20	0.75	15	0	11	2	0	0	0	0	2	0	0
...........................................TAGCTAACCTACGG-TGGCAAAG-CGG.......................................................................................................................................................................................................................................................................................................................	25	20	0.70	14	0	8	0	0	1	0	0	0	5	0
............................................................................................................................................................................................................................................C--A---------TG------GA---TGGAA-GGTCACGC----------AACA...........................................................................................	23	20	0.70	14	0	13	0	0	1	0	0	0	0	0
..............................................................................CGCC-AAGAGCGAGAGAGCGAGCTT......................................................................................................................................................................................................................................................................................	24	20	0.70	14	0	14	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................G------GA---TGGAA-GGTCACGC----------AACACC.........................................................................................	22	20	0.70	14	0	12	2	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTC.............................................................................................................	19	20	0.70	14	0	11	0	0	2	0	1	0	0	0
...........................................................................................................................................................................................................................................CC--A---------TG------GA---TGGAA-GGTCACGC----------AACACCG........................................................................................	27	20	0.70	14	0	14	0	0	0	0	0	0	0	0
........................................................................................................................................TTACACTAGACTTCATAATT----------CAGATC.................................................................................................................................................................................................................	26	9	0.67	6	0	3	3	0	0	0	0	0	0	0
...........................................................................................................................CCCTAGC-CTAACTTACACTAGACT.........................................................................................................................................................................................................................................	24	20	0.65	13	0	13	0	0	0	0	0	0	0	0
....................................................................................................................................TAACTTACACTAGACTTCATAATT----------C......................................................................................................................................................................................................................	25	20	0.65	13	0	13	0	0	0	0	0	0	0	0
....................ACAAT-TCAAATCTCTT--ACTC..................................................................................................................................................................................................................................................................................................................................................	20	20	0.65	13	0	8	0	0	0	0	0	5	0	0
.......................................................................................................................................................................................................................TA--------ATAATTGTGGCC--A---------TG------GA---TGG....................................................................................................................	22	20	0.65	13	0	10	0	0	2	0	0	0	1	0
.........................................................................................................................................TACACTAGACTTCATAATT----------CAGATCA................................................................................................................................................................................................................	26	8	0.63	5	0	5	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................A---------TG------GA---TGGAA-GGTCACGC----------AACACCGG.......................................................................................	26	20	0.60	12	0	11	1	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................TGGAA-GGTCACGC----------AACACCGGC......................................................................................	22	20	0.60	12	0	0	10	0	0	0	0	1	1	0
.......................................................................................................................................................................................................................TA--------ATAATTGTGGCC--A---------TG------GA---TGGAA-GGT..............................................................................................................	27	20	0.60	12	0	6	0	0	0	0	5	1	0	0
.........................................................................................................................................................................................................................................................TG------GA---TGGAA-GGTCACGC----------AACAC..........................................................................................	22	20	0.60	12	0	10	1	0	0	0	1	0	0	0
......................................................................................................................................................................................................................................TGTGGCC--A---------TG------GA---TGGAA-GG...............................................................................................................	19	20	0.60	12	0	12	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCACGC----------AAA............................................................................................	26	20	0.55	11	0	11	0	0	0	0	0	0	0	0
............................................................................TTCGCC-AAGAGCGAGAGAGCGAGC........................................................................................................................................................................................................................................................................................	24	20	0.55	11	0	0	8	0	3	0	0	0	0	0
...................CACAAT-TCAAATCTCTT--ACTCTAGCTA............................................................................................................................................................................................................................................................................................................................................	27	20	0.55	11	0	3	0	0	0	0	0	7	1	0
...............................................................................................................................................................................................................................................A---------TG------GA---TGGAA-GGTCACGC----------AACACCGGC......................................................................................	27	20	0.55	11	0	11	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................G------GA---TGGAA-GGTCACGC----------AACAC..........................................................................................	21	20	0.55	11	0	9	1	0	1	0	0	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-AAA..............................................................................................................	24	20	0.55	11	0	10	1	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-A................................................................................................................	22	20	0.55	11	0	11	0	0	0	0	0	0	0	0
.........T-----TCTTCACAAT-TCAAATCTCTT--AC....................................................................................................................................................................................................................................................................................................................................................	24	20	0.55	11	0	10	1	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................GGCC--A---------TG------GA---TGGAA-GGTCACGC----------A..............................................................................................	23	20	0.50	10	0	10	0	0	0	0	0	0	0	0
..........................................................TGGCAAAG-CGGGGCGAATTC..............................................................................................................................................................................................................................................................................................................	20	20	0.50	10	0	6	0	0	0	0	0	4	0	0
............................................................................................................................................................................................................................................C--A---------TG------GA---TGGAA-GGTCACGC----------AAC............................................................................................	22	20	0.50	10	0	7	0	0	2	0	1	0	0	0
......................................................................................................................................................................................................................................................................TGGAA-GGTCACGC----------AACACCGGCCCC...................................................................................	25	20	0.50	10	0	6	4	0	0	0	0	0	0	0
......................AAT-TCAAATCTCTT--ACTC..................................................................................................................................................................................................................................................................................................................................................	18	20	0.50	10	0	10	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................TG------GA---TGGAA-GGTCACGC----------AACACCGGCC.....................................................................................	27	20	0.50	10	0	7	1	0	0	0	0	2	0	0
....................................................TACGG-TGGCAAAG-CGGGG.....................................................................................................................................................................................................................................................................................................................	18	20	0.50	10	0	10	0	0	0	0	0	0	0	0
...........................................TAGCTAACCTACGG-TGGCAAAG-CGGG......................................................................................................................................................................................................................................................................................................................	26	20	0.50	10	0	9	0	0	0	1	0	0	0	0
.........................................................................................................................................TACACTAGACTTCATAATT----------CAGATCAA-----------------------------------............................................................................................................................................................................	27	8	0.50	4	0	4	0	0	0	0	0	0	0	0
........TT-----TCTTCACAAT-TCAAATCTCTT--......................................................................................................................................................................................................................................................................................................................................................	23	20	0.50	10	0	10	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................GGCC--A---------TG------GA---TGGAA-GGTCACGC----------AACA...........................................................................................	26	20	0.45	9	0	9	0	0	0	0	0	0	0	0
..................TCACAAT-TCAAATCTCTT--ACTCT.................................................................................................................................................................................................................................................................................................................................................	23	20	0.45	9	0	6	0	0	0	0	0	3	0	0
......................................................................................................................................................................................................................................TGTGGCC--A---------TG------GA---TGGAA-GGTCACG..........................................................................................................	24	20	0.45	9	0	8	0	0	1	0	0	0	0	0
........TT-----TCTTCACAAT-TCAAATCTCTT--ACTA..................................................................................................................................................................................................................................................................................................................................................	27	20	0.45	9	0	9	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................TA--------ATAATTGTGGCC--A---------TG------GA---TGGA...................................................................................................................	23	20	0.45	9	0	7	0	0	0	0	0	2	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GGTCAC...........................................................................................................	27	20	0.45	9	0	9	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................TGTGGCC--A---------TG------GA---TGGAA-GGTCA............................................................................................................	22	20	0.45	9	0	5	0	0	4	0	0	0	0	0
...............................................................................................................................................................................................................................................A---------TG------GA---TGGAA-GGTCACGC----------AACACCG........................................................................................	25	20	0.45	9	0	9	0	0	0	0	0	0	0	0
.................TTCACAAT-TCAAATCTCTT--ACTCTAGCT.............................................................................................................................................................................................................................................................................................................................................	28	20	0.40	8	0	1	0	0	0	0	0	7	0	0
.........................................................................................................................................................................................................................................GGCC--A---------TG------GA---TGGAA-GGTCACG..........................................................................................................	21	20	0.40	8	0	8	0	0	0	0	0	0	0	0
........TT-----TCTTCACAAT-TCAAATCTCTT--ACA...................................................................................................................................................................................................................................................................................................................................................	26	20	0.40	8	0	8	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................TA--------ATAATTGTGGCC--A---------TG------GA---TGGAA-.................................................................................................................	24	20	0.40	8	0	8	0	0	0	0	0	0	0	0
.....................CAAT-TCAAATCTCTT--ACTCTAGCT.............................................................................................................................................................................................................................................................................................................................................	24	20	0.40	8	0	8	0	0	0	0	0	0	0	0
........TT-----TCTTCACAAT-TCAAATCTCT.........................................................................................................................................................................................................................................................................................................................................................	22	20	0.40	8	0	7	1	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................GAA-GGTCACGC----------AACACCGG.......................................................................................	19	20	0.40	8	0	6	2	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................GCC--A---------TG------GA---TGGAA-GGTCACGC----------AACAC..........................................................................................	26	20	0.40	8	0	6	1	0	1	0	0	0	0	0
..............................................................................CGCC-AAGAGCGAGAGAGCGAGCT.......................................................................................................................................................................................................................................................................................	23	20	0.40	8	0	8	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................TGTGGCC--A---------TG------GA---TGGAA-GGTC.............................................................................................................	21	20	0.40	8	0	4	0	0	3	0	1	0	0	0
......................................................................................................................................................................................................................................................................................................CCCCGTTGAAC---------GCCTGCAT-CGG.......................................................	22	20	0.40	8	0	7	0	0	1	0	0	0	0	0
..........................................................TGGCAAAG-CGGGGCGAATTCGCC-AA........................................................................................................................................................................................................................................................................................................	25	20	0.40	8	0	8	0	0	0	0	0	0	0	0
........................................................................................................TATTGCGCTCCCGC-TTTGCCC...............................................................................................................................................................................................................................................................	21	20	0.40	8	0	8	0	0	0	0	0	0	0	0
...........................................TAGCTAACCTACGG-TGGCAAAG-CGGGG.....................................................................................................................................................................................................................................................................................................................	27	20	0.40	8	0	8	0	0	0	0	0	0	0	0
.......TTT-----TCTTCACAAT-TCAAATCTCTT--ACTC..................................................................................................................................................................................................................................................................................................................................................	28	20	0.40	8	0	6	0	0	0	0	0	2	0	0
......................................................................................................................................ACTTACACTAGACTTCATAATT----------CAGA...................................................................................................................................................................................................................	26	13	0.38	5	0	5	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................TGGAA-GGTCACGC----------AACACCGGT......................................................................................	22	20	0.35	7	0	7	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................GGAA-GGTCACGC----------AACACCGG.......................................................................................	20	20	0.35	7	0	7	0	0	0	0	0	0	0	0
....................................................TACGG-TGGCAAAG-CGGGGCGAATT...............................................................................................................................................................................................................................................................................................................	24	20	0.35	7	0	7	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................GAA-GGTCACGC----------AACACCGGCC.....................................................................................	21	20	0.35	7	0	5	2	0	0	0	0	0	0	0
..................TCACAAT-TCAAATCTCTT--ACTC..................................................................................................................................................................................................................................................................................................................................................	22	20	0.35	7	0	7	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................TGGAA-GGTCACGC----------AACACCG........................................................................................	20	20	0.35	7	0	7	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................GA---TGGAA-GGTCACGC----------AACACCGG.......................................................................................	23	20	0.35	7	0	7	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TCACGC----------AACACCGGCCCCGTTGA..............................................................................	23	20	0.35	7	0	7	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCAC...........................................................................................................	21	20	0.35	7	0	6	1	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GGTT.............................................................................................................	25	20	0.35	7	0	6	0	0	0	0	1	0	0	0
.....................................................................................................................................................................................................................................TTGTGGCC--A---------TG------GA---TGGAA-GGTCACG..........................................................................................................	25	20	0.35	7	0	6	0	0	0	0	0	0	1	0
........TT-----TCTTCACAAT-TCAAATCTCTT--ACTCA.................................................................................................................................................................................................................................................................................................................................................	28	20	0.35	7	0	2	0	0	1	0	0	4	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCACGC----------AACACC.........................................................................................	29	12	0.33	4	0	4	0	0	0	0	0	0	0	0
........................................................................................................................................TTACACTAGACTTCATAATT----------CAGA...................................................................................................................................................................................................................	24	13	0.31	4	0	4	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................GGCC--A---------TG------GA---TGGAA-GGTCACGC----------AAC............................................................................................	25	20	0.30	6	0	5	0	0	0	0	1	0	0	0
..........................................................................................................................GCCCTAGC-CTAACTTACACTAGACT.........................................................................................................................................................................................................................................	25	20	0.30	6	0	6	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGT..............................................................................................................	18	20	0.30	6	0	5	0	0	1	0	0	0	0	0
.................................................ACCTACGG-TGGCAAAG-CGGGGCGA..................................................................................................................................................................................................................................................................................................................	24	20	0.30	6	0	6	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................CCCCGTTGAAC---------GCCTGCAT-CGGC......................................................	23	20	0.30	6	0	6	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................ATAATTGTGGCC--A---------TG------GA---TGGAA-GG...............................................................................................................	24	20	0.30	6	0	6	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................GA---TGGAA-GGTCACGC----------AACACCGGC......................................................................................	24	20	0.30	6	0	6	0	0	0	0	0	0	0	0
..................................................CCTACGG-TGGCAAAG-CGGGG.....................................................................................................................................................................................................................................................................................................................	20	20	0.30	6	0	5	0	0	0	0	1	0	0	0
.....................................................................................................................................................................................................................................TTGTGGCC--A---------TG------GA---TGGAA-GGTCA............................................................................................................	23	20	0.30	6	0	6	0	0	0	0	0	0	0	0
..................................................................................................................CCGC-TTTGCCCTAGC-CTAACTTACAC...............................................................................................................................................................................................................................................	26	20	0.30	6	0	6	0	0	0	0	0	0	0	0
.....................................................................................GAGCGAGAGAGCGAGCTTTTATTG................................................................................................................................................................................................................................................................................	24	20	0.30	6	0	6	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................C--A---------TG------GA---TGGAA-GGTCACGC----------AACACCG........................................................................................	26	20	0.30	6	0	6	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................G------GA---TGGAA-GGTCACGC----------AACACA.........................................................................................	22	20	0.30	6	0	6	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................TGGAA-GGTCACGC----------AACACCGGCT.....................................................................................	23	20	0.30	6	0	4	2	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GAA..............................................................................................................	24	20	0.30	6	0	6	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................GCC--A---------TG------GA---TGGAA-GGTCACGC----------AACA...........................................................................................	25	20	0.25	5	0	4	0	0	1	0	0	0	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCA............................................................................................................	20	20	0.25	5	0	4	0	0	1	0	0	0	0	0
................................................................................CC-AAGAGCGAGAGAGCGAGCT.......................................................................................................................................................................................................................................................................................	21	20	0.25	5	0	5	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................A---------TG------GA---TGGAA-GGTCACGC----------AACACC.........................................................................................	24	20	0.25	5	0	4	1	0	0	0	0	0	0	0
.......................................................................................................TTATTGCGCTCCCGC-TTTGCCCTAGC-T.........................................................................................................................................................................................................................................................	27	20	0.25	5	0	5	0	0	0	0	0	0	0	0
....................................................................GGGGCGAATTCGCC-AAGAGCGAGAG...............................................................................................................................................................................................................................................................................................	25	20	0.25	5	0	5	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................TGAAC---------GCCTGCAT-CGGCTTCAAC................................................	23	20	0.25	5	0	4	1	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................GCC--A---------TG------GA---TGGAA-GGTCACGC----------AAC............................................................................................	24	20	0.25	5	0	1	0	0	0	0	2	2	0	0
...........................................................................................................TGCGCTCCCGC-TTTGCCCTAG............................................................................................................................................................................................................................................................	21	20	0.25	5	0	5	0	0	0	0	0	0	0	0
.....................CAAT-TCAAATCTCTT--ACTCTAG...............................................................................................................................................................................................................................................................................................................................................	22	20	0.25	5	0	4	0	0	0	0	0	0	1	0
....................................................................GGGGCGAATTCGCC-AAGAGCGAGAGA..............................................................................................................................................................................................................................................................................................	26	20	0.25	5	0	5	0	0	0	0	0	0	0	0
........................................................................................................................TTGCCCTAGC-CTAACTTACACTAGAC..........................................................................................................................................................................................................................................	26	20	0.25	5	0	4	1	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................GTCACGC----------AACACCGGCCCCGTTGAAC---------G..................................................................	27	20	0.25	5	0	5	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................GGCC--A---------TG------GA---TGGAA-GGTCACGC----------AACACA.........................................................................................	28	16	0.25	4	0	4	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................TA--------ATAATTGTGGCC--A---------TG------GA---T......................................................................................................................	20	20	0.25	5	0	5	0	0	0	0	0	0	0	0
....................................................................................................................................TAACTTACACTAGACTTCATAATT----------CAA....................................................................................................................................................................................................................	27	20	0.25	5	0	1	0	0	0	0	0	4	0	0
.................TTCACAAT-TCAAATCTCTT--ACTCTAG...............................................................................................................................................................................................................................................................................................................................................	26	20	0.25	5	0	0	1	0	0	0	0	1	3	0
............................................................................................................................................................................................................................................C--A---------TG------GA---TGGAA-GGTCACGC----------AACACA.........................................................................................	25	20	0.25	5	0	5	0	0	0	0	0	0	0	0
................................................................................CC-AAGAGCGAGAGAGCGAGC........................................................................................................................................................................................................................................................................................	20	20	0.25	5	0	0	1	0	0	0	0	4	0	0
......................................................................................................................................................................................................................................TGTGGCC--A---------TG------GA---TGGAA-GGT..............................................................................................................	20	20	0.25	5	0	5	0	0	0	0	0	0	0	0
.........................................................................................................................TGCCCTAGC-CTAACTTACACTAGACTT........................................................................................................................................................................................................................................	27	20	0.25	5	0	5	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TG.....................................................................................................................	18	20	0.25	5	0	5	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................CCCCGTTGAAC---------GCCTGCAT-CGGCT.....................................................	24	20	0.25	5	0	5	0	0	0	0	0	0	0	0
..................TCACAAT-TCAAATCTCTT--ACTCTAGCA.............................................................................................................................................................................................................................................................................................................................................	27	20	0.25	5	0	2	0	0	0	0	0	3	0	0
..........................................................................................................TTGCGCTCCCGC-TTTGCCCTAGC-..........................................................................................................................................................................................................................................................	23	20	0.25	5	0	5	0	0	0	0	0	0	0	0
..........................................................................................................................................ACACTAGACTTCATAATT----------CAGATCAA-----------------------------------............................................................................................................................................................................	26	8	0.25	2	0	2	0	0	0	0	0	0	0	0
...............................................................................................................................................AGACTTCATAATT----------CAGATCAA-----------------------------------T--AA.......................................................................................................................................................................	24	8	0.25	2	0	0	0	0	0	0	0	2	0	0
...................CACAAT-TCAAATCTCTT--ACTC..................................................................................................................................................................................................................................................................................................................................................	21	20	0.25	5	0	5	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................TGGAA-GGTCACGC----------AACACCGGCCCCGA.................................................................................	27	20	0.25	5	0	4	1	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TCACGC----------AACACCGGCCCCGTTGAA.............................................................................	24	20	0.25	5	0	5	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GT...............................................................................................................	23	20	0.25	5	0	0	0	0	4	0	1	0	0	0
.....................................................................................................................................AACTTACACTAGACTTCATAATT----------CA.....................................................................................................................................................................................................................	25	20	0.25	5	0	3	0	0	0	0	0	1	1	0
....................................................TACGG-TGGCAAAG-CGGGGCGAATTC..............................................................................................................................................................................................................................................................................................................	25	20	0.25	5	0	5	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................GGCC--A---------TG------GA---TGGAA-GGTCACGC----------AACACC.........................................................................................	28	12	0.25	3	0	2	0	0	1	0	0	0	0	0
.......................................................................................................TTATTGCGCTCCCGC-TTTGCCCTAGC-CT........................................................................................................................................................................................................................................................	28	20	0.25	5	0	4	0	0	0	0	0	0	1	0
........................................................................................................................................................................................................................................................................GAA-GGTCACGC----------AACACCGGCCC....................................................................................	22	20	0.25	5	0	3	2	0	0	0	0	0	0	0
........................T-TCAAATCTCTT--ACTCTAGC..............................................................................................................................................................................................................................................................................................................................................	20	20	0.25	5	0	3	1	0	0	0	0	0	1	0
........TT-----TCTTCACAAT-TCAAATCTC..........................................................................................................................................................................................................................................................................................................................................................	21	20	0.25	5	0	3	2	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................TGCAT-CGGCTTCAACA----------------CATTGG.........................	22	20	0.25	5	0	4	1	0	0	0	0	0	0	0
......................................................................................................................................ACTTACACTAGACTTCATAATT----------CAGATC.................................................................................................................................................................................................................	28	9	0.22	2	0	2	0	0	0	0	0	0	0	0
........................................................................................................................................TTACACTAGACTTCATAATT----------CAGAT..................................................................................................................................................................................................................	25	10	0.20	2	0	2	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................TTGTGGCC--A---------TG------GA---TGGAA-GG...............................................................................................................	20	20	0.20	4	0	4	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................A---------TG------GA---TGGAA-GGTCACGC----------AAC............................................................................................	21	20	0.20	4	0	4	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GGG..............................................................................................................	24	20	0.20	4	0	1	0	0	1	0	0	2	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GGA..............................................................................................................	24	20	0.20	4	0	4	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................AATTGTGGCC--A---------TG------GA---TGGAA-GGT..............................................................................................................	23	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................TG------GA---TGGAA-GGTCACGC----------AACACA.........................................................................................	23	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.............................................................CAAAG-CGGGGCGAATTCGCC-AAGAG.....................................................................................................................................................................................................................................................................................................	25	20	0.20	4	0	4	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................AACACCGGCCCCGTTGAAC---------GCCTG..............................................................	24	20	0.20	4	0	3	0	0	1	0	0	0	0	0
...................................................................................................................................................................................................................................AATTGTGGCC--A---------TG------GA---TGGAA-GGTC.............................................................................................................	24	20	0.20	4	0	4	0	0	0	0	0	0	0	0
..................TCACAAT-TCAAATCTCTT--ACTCTA................................................................................................................................................................................................................................................................................................................................................	24	20	0.20	4	0	3	0	0	0	0	0	1	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGGAA-GA...............................................................................................................	23	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.....................................................................................GAGCGAGAGAGCGAGCTTTTATTGCGC.............................................................................................................................................................................................................................................................................	27	20	0.20	4	0	4	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................CGGCCCCGTTGAAC---------GCCTGCAT-CG........................................................	24	20	0.20	4	0	1	0	0	0	0	0	3	0	0
.................................................................................................................................................................................................................................ATAATTGTGGCC--A---------TG------GA---TGGAA-G................................................................................................................	23	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................GTCACGC----------AACACCGGCCCCGTTGAA.............................................................................	25	20	0.20	4	0	4	0	0	0	0	0	0	0	0
....................ACAAT-TCAAATCTCTT--ACTCTA................................................................................................................................................................................................................................................................................................................................................	22	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................GGAA-GGTCACGC----------AACACCGGCC.....................................................................................	22	20	0.20	4	0	4	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................TGTGGCC--A---------TG------GA---TGGAA-GGTCAA...........................................................................................................	23	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................GTGGCC--A---------TG------GA---TGGAA-GG...............................................................................................................	18	20	0.20	4	0	3	0	0	0	1	0	0	0	0
........................................................................................................................................................................................................................................................................GAA-GGTCACGC----------AACACCGGCCCCGA.................................................................................	25	20	0.20	4	0	4	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................C--A---------TG------GA---TGGAA-GGTCACGC----------AA.............................................................................................	21	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................TTGTGGCC--A---------TG------GA---TGGAA-GGTC.............................................................................................................	22	20	0.20	4	0	3	0	0	0	0	1	0	0	0
...................................................................................................................................................................................................................................AATTGTGGCC--A---------TG------GA---TGGAA-.................................................................................................................	20	20	0.20	4	0	4	0	0	0	0	0	0	0	0
......................AAT-TCAAATCTCTT--ACTCTAG...............................................................................................................................................................................................................................................................................................................................................	21	20	0.20	4	0	1	0	0	0	0	0	0	3	0
..........................................................................................................TTGCGCTCCCGC-TTTGCCCTAGC-C.........................................................................................................................................................................................................................................................	24	20	0.20	4	0	0	4	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................TTGTGGCC--A---------TG------GA---TGGAA-G................................................................................................................	19	20	0.20	4	0	4	0	0	0	0	0	0	0	0
...............................................................................GCC-AAGAGCGAGAGAGCGAGC........................................................................................................................................................................................................................................................................................	21	20	0.20	4	0	4	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................CC--A---------TG------GA---TGGAA-GGTCACGC----------AA.............................................................................................	22	20	0.20	4	0	0	1	0	2	0	1	0	0	0
............................................................................TTCGCC-AAGAGCGAGAGAGCGAGCTTT.....................................................................................................................................................................................................................................................................................	27	20	0.20	4	0	4	0	0	0	0	0	0	0	0
....................ACAAT-TCAAATCTCTT--ACTCTAGCTAACC.........................................................................................................................................................................................................................................................................................................................................	29	20	0.20	4	0	3	0	1	0	0	0	0	0	0
....................................................................................................................................TAACTTACACTAGACTTCATAATT----------CAGAT..................................................................................................................................................................................................................	29	10	0.20	2	0	2	0	0	0	0	0	0	0	0
.....TATTT-----TCTTCACAAT-TCAAATCTCT.........................................................................................................................................................................................................................................................................................................................................................	25	20	0.20	4	0	4	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................G------GA---TGGAA-GGTCACGC----------AACACCGGA......................................................................................	25	20	0.20	4	0	4	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................AGCGGCGCTAATTTGTGTAT-GGG	23	12	0.17	2	0	2	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................GCC--A---------TG------GA---TGGAA-GGTCACGC----------AACACC.........................................................................................	27	19	0.16	3	0	3	0	0	0	0	0	0	0	0
....................................................................................................................................TAACTTACACTAGACTTCATAATT----------CAG....................................................................................................................................................................................................................	27	13	0.15	2	0	1	1	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................TG------GA---TGGAA-GGTCACGC----------AAC............................................................................................	20	20	0.15	3	0	1	1	0	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................GA---TGGAA-GGTCACGC----------AACACCG........................................................................................	22	20	0.15	3	0	2	0	0	1	0	0	0	0	0
................................................................................................................................................................................................................................................................................................CACCGGCCCCGTTGAAC---------GCCTGCA............................................................	24	20	0.15	3	0	1	0	0	0	0	0	2	0	0
................................................AACCTACGG-TGGCAAAG-CGGGGCGA..................................................................................................................................................................................................................................................................................................................	25	20	0.15	3	0	2	0	0	0	0	0	1	0	0
..................................................CCTACGG-TGGCAAAG-CGGGGCGAA.................................................................................................................................................................................................................................................................................................................	24	20	0.15	3	0	3	0	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................CACGC----------AACACCGGCCCCGTTG...............................................................................	21	20	0.15	3	0	3	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................A--------ATAATTGTGGCC--A---------TG------GA---TGG....................................................................................................................	21	20	0.15	3	0	3	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................ATAATTGTGGCC--A---------TG------GA---TGGAA-GGT..............................................................................................................	25	20	0.15	3	0	1	0	0	0	0	1	1	0	0
........................................................................................................................................................................................................................A--------ATAATTGTGGCC--A---------TG------GA---TGGAA-G................................................................................................................	24	20	0.15	3	0	3	0	0	0	0	0	0	0	0
.................TTCACAAT-TCAAATCTCTT--ACTC..................................................................................................................................................................................................................................................................................................................................................	23	20	0.15	3	0	3	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................GAA-GGTCACGC----------AACACCGGCCCCGT.................................................................................	25	20	0.15	3	0	3	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................TGGCC--A---------TG------GA---TGGAA-GGTCACA..........................................................................................................	22	20	0.15	3	0	1	1	0	1	0	0	0	0	0

droPer2

AACTATATTT-----TCTTCACAAT-TCAAATCTCTT--ACTCTAGCTAACCTACGG-TGGCAAAG-CGGGGCGAATTCGCC-AAGAGCGAGAGAGCGAGCTTTTATTGCGCTCCCGC-TTTGCCCTAGC-CTAACTTACACTAGACTTCATAATT----------CAGATCTA-----------------------------------T--AACTA--------ATAATTGTGGCC--A---------TG------GA---TGTAA-GGTCACGC----------AACACCGGCCCCGTTGAAC---------GCCTGCAT-CGGCTTCAACA----------------CATTGGGAGCGGCGCTAATTTGTGTAT-GGG	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
...................................TT--ACTCTAGCTAACCTACGG-TGGCAA.............................................................................................................................................................................................................................................................................................................................	26	20	0.70	14	0	14	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................TCAACA----------------CATTGGGAGCGGCG.................	20	20	0.60	12	0	12	0	0	0	0
...................................................................................................................................................................................................................................AATTGTGGCC--A---------TG------GA---TGTAA-GGTC.............................................................................................................	24	2	0.50	1	0	0	0	0	0	1
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGTAA-.................................................................................................................	21	2	0.50	1	0	1	0	0	0	0
..................................................................................................................................................................................................................................TAATTGTGGCC--A---------TG------GA---TGTAA-GG...............................................................................................................	23	2	0.50	1	0	1	0	0	0	0
.................................................................................................................................................................................................................T--AACTA--------ATAATTGTGGCC--A---------TG------GA---TG.....................................................................................................................	25	20	0.50	10	0	10	0	0	0	0
...................................TT--ACTCTAGCTAACCTACGG-TG.................................................................................................................................................................................................................................................................................................................................	22	20	0.30	6	0	6	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................TCAACA----------------CATTGGGAGCGGC..................	19	20	0.20	4	0	4	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................TCAACA----------------CATTGGGAGCGGCGCTAA.............	24	20	0.15	3	0	0	0	1	0	2
.........................................................................................................................................................................................................................................................................................................................................CAACA----------------CATTGGGAGCGGCGCTAAT............	24	20	0.10	2	0	2	0	0	0	0
................................................................................................................................................GACTTCATAATT----------CAGATCTA-----------------------------------T--AACTA--------............................................................................................................................................................	26	19	0.05	1	0	1	0	0	0	0
..........................................................................................................................................................TT----------CAGATCTA-----------------------------------T--AACTA--------ATAATTGTG...................................................................................................................................................	25	19	0.05	1	0	1	0	0	0	0
..........................................................................................................................................................TT----------CAGATCTA-----------------------------------T--AACTA--------ATAATTGTGG..................................................................................................................................................	26	19	0.05	1	0	1	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................GCTTCAACA----------------CATTGGGAGCGT...................	21	20	0.05	1	0	0	0	0	0	1
...........................................................GGCAAAG-CGGGGCGAATTCGCC-AAGA......................................................................................................................................................................................................................................................................................................	26	20	0.05	1	0	1	0	0	0	0
...................................TT--ACTCTAGCTAACCTACGG-TGGC...............................................................................................................................................................................................................................................................................................................................	24	20	0.05	1	0	0	1	0	0	0
................................................................................................................................................................................................................................................................................................................................................................TTGGGAGCGGCGCTAATTTGTGT......	23	20	0.05	1	0	1	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................TTCAACA----------------CATTGGGAGCGGCGCTAATT...........	27	20	0.05	1	0	1	0	0	0	0
...................................TT--ACTCTAGCTAACCTACGG-TGGCAAA............................................................................................................................................................................................................................................................................................................................	27	20	0.05	1	0	1	0	0	0	0
.......................AT-TCAAATCTCTT--ACTCTAGC..............................................................................................................................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................TTCAACA----------------CATTGGGAGCGGCGCTAA.............	25	20	0.05	1	0	1	0	0	0	0
..............................................................................................................................................................................................................................................................................................AACACCGGCCCCGTTGAAC---------GCCTGCAT-..........................................................	27	20	0.05	1	0	1	0	0	0	0

droWil2

A-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGGCCCCCTTGGAG---------GGCTATAA-GGCCTTCAAAA----------------AATCGGCAAGGGTGCCAATTTGTGGAT-CGC	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.......................................................................................................................................................................................................................................................................................................................................TTCAAAA----------------AATCGGCAAGGGTGCCAAT............	26	6	0.17	1	0	1	0	0	0

droVir3

GACAA----------------------CTAA--ACTTA-AGCCTACATTAAGCTAACGCGGCGAG-GCAAGGCAAATCGCTC-CAAAGCGACTGATAAAGCT-TTATTGCGCTCTCGA-AGCGCCCTAAACCCAACACACACTAGACTTTATGTTT----------CATATTAA-----------------------------------T----TTTTTAATTCA--------------------------ATG-CG-----C--GGACCTGTGCC----------AACACCGGCCACCATGAAG---------CGCTTGG--GGGCTTCGTTC----------------CATGGGTATCCAAGCCAACTTGTGGAT-CGG	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
..........................................................................................................................................................................................................................TAATTCA--------------------------ATG-CG-----C--GGACCTGTGCC----------A..............................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droMoj3

ATATATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCGCGTTGAAA---------GGCCGCA--GGGCTTCAATAATATGGGGTATTAGTTGAGTGGCAGTGGGGCAACACGATGAAT-TGC	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.....TC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCGCG..................................................................................	25	7	1.43	10	10	0	0	0	0	0
.....TC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCGC...................................................................................	24	7	1.14	8	6	1	0	0	1	0
............................................................................................................................................................................................................................................................................................................................................TAATATGGGGTATTAGTTGAGTGG.........................	24	5	0.80	4	4	0	0	0	0	0
.....TC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCGCGT.................................................................................	26	7	0.71	5	5	0	0	0	0	0
.....TC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCGCGTTG...............................................................................	28	7	0.43	3	3	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................TAATATGGGGTATTAGTTGAGTGGCAG......................	27	5	0.40	2	2	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................................................ATAATATGGGGTATTAGTTGAGTGG.........................	25	5	0.40	2	2	0	0	0	0	0
ATATATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGG.......................................................................................	25	8	0.38	3	3	0	0	0	0	0
ATATATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCC.....................................................................................	27	8	0.38	3	2	0	0	0	1	0
............................................................................................................................................................................................................................................................................................................................................TAATATGGGGTATTAGTTGAGT...........................	22	6	0.33	2	2	0	0	0	0	0
..............................................................................................................................................................................................................................................................................................................................................................GAGTGGCAGTGGGGCAACACGATGAA.....	26	6	0.33	2	2	0	0	0	0	0
.....TC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCC.....................................................................................	22	8	0.25	2	0	0	0	0	2	0
.TATATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCC.....................................................................................	26	8	0.25	2	2	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................TAATATGGGGTATTAGTTGAGTG..........................	23	5	0.20	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................AATAATATGGGGTATTAGTTGAGTGG.........................	26	5	0.20	1	1	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................TAATATGGGGTATTAGTTGAGTGGC........................	25	5	0.20	1	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................TTCAATAATATGGGGTATTAGTTGAGTG..........................	28	5	0.20	1	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................................CTC----------AACATCGGCCGCGTTGAAA---------GGCC...............................................................	26	6	0.17	1	0	0	0	0	1	0
..................................................................................................................................................................................................................................................................................TC----------AACATCGGCCGCGTTGAAA---------GGC................................................................	24	6	0.17	1	1	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................TTGAGTGGCAGTGGGGCAACACGATG.......	26	6	0.17	1	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................TTCAATAATATGGGGTATTAGTTG..............................	24	6	0.17	1	1	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................AATATGGGGTATTAGTTGAGTG..........................	22	6	0.17	1	1	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................CAATAATATGGGGTATTAGT................................	20	6	0.17	1	1	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................TATGGGGTATTAGTTGAGTGG.........................	21	6	0.17	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................AATAATATGGGGTATTAGTTGA.............................	22	6	0.17	1	1	0	0	0	0	0
..............................................................................................................................................................................................................................................................................TGCCTC----------AACATCGGCCGCGTTGAAA---------GG.................................................................	27	6	0.17	1	0	1	0	0	0	0
.......................................................................................................................................................................................................................................................................................................CGCGTTGAAA---------GGCCGCA--GGGC......................................................	21	20	0.15	3	2	0	0	0	0	1
...TATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCGC...................................................................................	26	7	0.14	1	0	0	0	0	1	0
...TATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCGCGT.................................................................................	28	7	0.14	1	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................TATTAGTTGAGTGGCAGTG....................	19	7	0.14	1	0	0	0	0	1	0
ATATATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCG....................................................................................	28	7	0.14	1	0	0	0	0	1	0
.................................................................................................................................................................................................................................................................................................................................................TGGGGTATTAGTTGAGTGGCAGT.....................	23	7	0.14	1	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................TTAGTTGAGTGGCAGTGGGGC................	21	7	0.14	1	1	0	0	0	0	0
................................................................................................................................................................................................................................................................................................................................................ATGGGGTATTAGTTGAGTGGC........................	21	7	0.14	1	1	0	0	0	0	0
....ATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCGCG..................................................................................	26	7	0.14	1	1	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................TTAGTTGAGTGGCAGTGGGGCAAC.............	24	7	0.14	1	1	0	0	0	0	0
......C------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCCGCG..................................................................................	24	7	0.14	1	1	0	0	0	0	0
......C------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCC.....................................................................................	21	8	0.13	1	1	0	0	0	0	0
...TATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGCC.....................................................................................	24	8	0.13	1	0	0	0	0	1	0
ATATATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACATCGGC......................................................................................	26	8	0.13	1	0	0	0	0	1	0
ATATATC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CA-AATGCCTC----------AACAT..........................................................................................	22	12	0.08	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................GTTGAAA---------GGCCGCA--GGCG......................................................	18	20	0.05	1	0	0	0	0	1	0
......................................................................................................................................................................................................................................................................................................CCGCGTTGAAA---------GGCCGCA--GGGCTTC...................................................	25	20	0.05	1	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................TCGGCCGCGTTGAAA---------GGCCGCA--GGGCTT....................................................	28	20	0.05	1	0	0	0	0	1	0
......................................................................................................................................................................................................................................................................................................CCGCGTTGAAA---------GGCCGCA--GG........................................................	20	20	0.05	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................GTTGAAA---------GGCCGCA--GGGCTT....................................................	20	20	0.05	1	1	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................TCGGCCGCGTTGAAA---------GGCCGCA--GGGCT.....................................................	27	20	0.05	1	1	0	0	0	0	0

-9.3	-9.1	-9.0	-9.0

dan_1172

scaffold_13082:217182-217332 -

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