dme-mir-971- Best orthologs

dme-mir-971	chrX:12956105-12956200 +	Known_mirbase
[View on miRBase]	[View on UCSC Genome Browser {Cornell Mirror}]	intron

Legend:

   mature strand at position 12956164-12956185
   star strand at position 12956124-12956147
   mutations
   read mismatches

Notes: "droSim1 orthlog lies in near two chains (in chrX_random and chrX) which is why it is not found. droSec1, droYak2, droEre2 all have A->G SNP in mature region. "

20-way Fast Statistical Aligner (FSA) re-alignment

Visually pleasing best hits from LASTZ and MAF

Species	Coordinate	Source	Confidence	Alignment
dm3	chrX:12956090-12956215 +		1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACC
droSim1	chrX:9862862-9862886 +	LASTZ	1	-----------------------------------------------------------------------------------------------------------------------CCAGTCC------------------------GTACACA--GAAAGAAA-----ACC
droSec1	super_21:701218-701343 +	LASTZ	1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACC
droYak2	chrX:7229770-7229895 +	LASTZ	1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----AAC
droEre2	scaffold_4690:13914734-13914859 -	LASTZ	1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCCCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACC
droEug1	scf7180000409110:1404464-1404591 +	LASTZ	4	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACACAGAAAGAAA-----ATA
droBia1	scf7180000298389:643181-643307 +	LASTZ	4	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCCCGCTGTAAATTGTAATCATCAAAGCGTT-TTT-----CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--CAGAGAAA-----ACC
droTak1	scf7180000413998:42808-42938 +	LASTZ	4	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAAAAAATAAC
droEle1	scf7180000490546:934549-934678 -	LASTZ	4	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TTT-----CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGCCC------------------------GTACACA--GAAAGAAATAA--AAA
droRho1	scf7180000779914:464148-464274 -	LASTZ	4	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGTTCGCTGTAAATTGTAATCATCAAAGCGTT-TTT-----TTCAGAACCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACT
droFic1	scf7180000454050:893108-893233 +	LASTZ	4	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCCCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--AAGAGAAA-----ACC
droKik1	scf7180000302544:775471-775599 -	LASTZ	4	TCA----GAGCGAAA--------TTCCTTGGCTGGCAG--CGCACACTGTAAATTGTAATCATCAAAGCGTT-TTT-----CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGCGCCAGTAC-AC---------------------GTACACACGGCAAGAAA-----GAA
droAna3	scaffold_13117:3891784-3891909 +	LASTZ	1	TGCATGTGAGAA-AA--------TTCCGTGGCTGGCAT--CGTTCACTGTAAATTGTAACCATCAAAGCGTT-TTTT----ATCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGAGCCAGCTG------------------------GAGCACA--TATTAAAA-----A--
droBip1	scf7180000396383:483175-483291 -	LASTZ	4	TGCATGTGAGAA-AA--------TTCCGTGGCTGGCAT--CGTTCACTGTAAATTGTAACCATCAAAGCGTT-TTTT----ATCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGAGCCAGCTG------------------------GAGCACA------------------
dp4	chrXL_group3a:1391638-1391748 -	LASTZ	1	AGCATGTGAGAG-AGCGGCTCCTTTCCCTGGACCCCAT--CGCTCGCTGTAAATTGTAATGGCCAAAGCTTT-TTTG----TTGGTAGCAGCTTGGTGTTACTTCTTACAGTGAGTGTG--------------------------------------------------------
droPer1	super_52:413307-413417 +	LASTZ	1	AGCATGTGAGAG-AGCGGCTCCTTTCCCTGGACCCCAT--CGCTCGCTGTAAATTGTAATGGCCAAAGCTTT-TTTG----TTGGTAGCAGCTTGGTGTTACTTCTTACAGTGAGTGTG--------------------------------------------------------
droWil1	scaffold_181096:6691507-6691601 -	LASTZ	1	AC------------A--------TTAAACGGCCCAATA--CGCTCGCTGTAAATTGTAGCAATCAAAGCGTTGCCTTTTGCCTC---ACAGCTTGGTGTTACTTCTTACAGTGAGTGTG--------------------------------------------------------
droVir3	scaffold_12928:4279754-4279849 -	LASTZ	1	-------------------------------------------CCGCTGTAAAATGTAATCATCAGAGCGTC-CT------CTC--AACCGCTTGGTGTTACTTCTTACAGTGAGTGCGACGGCCC------------------------AAGGTCC--GACCGTAAATC--ATA
droMoj3	scaffold_6328:350121-350240 +	LASTZ	1	----------------------------------------CGACCGCTGTAAATTGTAATCATCAAAGCGTC-TG------CTA--AATCGCTTGGTGTTACTTCTTACAGTGAGCGCGGCGCTCGAAACTACAGTGAAACTAGCATAAAGTGAACAAGGAAAGGAA-----A--
droGri2	scaffold_14853:994421-994540 -	LASTZ	1	CACG---------AA--------C---TTGAATGACGTCACGCCCGCTGTAATATGTAATCATCAAAGCGTG-TATT-----TT--ACTCGCTTGGTGTTACTTCTTACAGTGAGTGCGACGGCCACAC---------------------GTCCAGC--GGAGGAGA-----GTG

Legend

0- The ortholog is absent. A better synthenic sequence candidate could not be found.
1- Reads w/ good pileup on mature and star strand & folds into hairpin structure.
2- Reads w/ good pileup on mature and star strand BUT does not fold into hairpin structure.
3- Sporadic reads & folds into a hairpin structure.
4- No reads but folds into a hairpin structure.
5- Ortholog is confident but miRNA appears absent (no reads and does not fold into a hairpin)

Re-alignment after removal of non-confident orthologs

Species	Alignment
dm3	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACC
droSim1	-----------------------------------------------------------------------------------------------------------------------CCAGTCC------------------------GTACACA--GAAAGAAA-----ACC
droSec1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACC
droYak2	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----AAC
droEre2	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCCCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACC
droEug1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACACAGAAAGAAA-----ATA
droBia1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCCCGCTGTAAATTGTAATCATCAAAGCGTT-TTT-----CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--CAGAGAAA-----ACC
droTak1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAAAAAATAAC
droEle1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TTT-----CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGCCC------------------------GTACACA--GAAAGAAATAA--AAA
droRho1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGTTCGCTGTAAATTGTAATCATCAAAGCGTT-TTT-----TTCAGAACCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACT
droFic1	TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCCCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--AAGAGAAA-----ACC
droKik1	TCA----GAGCGAAA--------TTCCTTGGCTGGCAG--CGCACACTGTAAATTGTAATCATCAAAGCGTT-TTT-----CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGCGCCAGTAC-AC---------------------GTACACACGGCAAGAAA-----GAA
droAna3	TGCATGTGAGAA-AA--------TTCCGTGGCTGGCAT--CGTTCACTGTAAATTGTAACCATCAAAGCGTT-TTTT----ATCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGAGCCAGCTG------------------------GAGCACA--TATTAAAA-----A--
droBip1	TGCATGTGAGAA-AA--------TTCCGTGGCTGGCAT--CGTTCACTGTAAATTGTAACCATCAAAGCGTT-TTTT----ATCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGAGCCAGCTG------------------------GAGCACA------------------
dp4	AGCATGTGAGAG-AGCGGCTCCTTTCCCTGGACCCCAT--CGCTCGCTGTAAATTGTAATGGCCAAAGCTTT-TTTG----TTGGTAGCAGCTTGGTGTTACTTCTTACAGTGAGTGTG--------------------------------------------------------
droPer1	AGCATGTGAGAG-AGCGGCTCCTTTCCCTGGACCCCAT--CGCTCGCTGTAAATTGTAATGGCCAAAGCTTT-TTTG----TTGGTAGCAGCTTGGTGTTACTTCTTACAGTGAGTGTG--------------------------------------------------------
droWil1	AC------------A--------TTAAACGGCCCAATA--CGCTCGCTGTAAATTGTAGCAATCAAAGCGTTGCCTTTTGCCTC---ACAGCTTGGTGTTACTTCTTACAGTGAGTGTG--------------------------------------------------------
droVir3	-------------------------------------------CCGCTGTAAAATGTAATCATCAGAGCGTC-CT------CTC--AACCGCTTGGTGTTACTTCTTACAGTGAGTGCGACGGCCC------------------------AAGGTCC--GACCGTAAATC--ATA
droMoj3	----------------------------------------CGACCGCTGTAAATTGTAATCATCAAAGCGTC-TG------CTA--AATCGCTTGGTGTTACTTCTTACAGTGAGCGCGGCGCTCGAAACTACAGTGAAACTAGCATAAAGTGAACAAGGAAAGGAA-----A--
droGri2	CACG---------AA--------C---TTGAATGACGTCACGCCCGCTGTAATATGTAATCATCAAAGCGTG-TATT-----TT--ACTCGCTTGGTGTTACTTCTTACAGTGAGTGCGACGGCCACAC---------------------GTCCAGC--GGAGGAGA-----GTG

20-way Secondary Structure

	dm3	droSim1	droSec1	droYak2	droEre2	droEug1	droBia1	droTak1	droEle1	droRho1	droFic1	droKik1	droAna3	droBip1	dp4	droPer1	droWil1	droVir3	droMoj3	droGri2
RNAfold Image
UNAFold Image		None

Small RNA-seq read pileup

Species

Alignment

droSim1

-----------------------------------------------------------------------------------------------------------------------CCAGTCC------------------------GTACACA--GAAAGAAA-----ACC

Size

Hit Count

Total Norm

V044
Embryo

M023
Head

M024
Male body

M025
Embryo

droSec1

TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACC	Size	Hit Count	Total Norm	V113 Male body	V114 Embryo	V115 Head
............................................................................................TTGGTGTTACTTCTTGCAGTGA.............................................................	22	1	230.00	10.00	45.00	175.00
............................................................................................TTGGTGTTACTTCTTACAGTGA.............................................................	22	1	171.00	0.00	126.00	45.00
............................................................................................TTGGTGTTACTTCTTGCAGTG..............................................................	21	1	32.00	1.00	1.00	30.00
.............................................GCTGTAAATTGTAATCATCA..............................................................................................................	20	1	27.00	1.00	1.00	25.00
.............................................GCTGTAAATTGTAATCATCAA.............................................................................................................	21	1	12.00	0.00	0.00	12.00
............................................................................................TTGGTGTTACTTCTTGCGGTGA.............................................................	22	1	11.00	1.00	1.00	9.00
............................................................................................TTGGTGTTACTTCTTGCAGT...............................................................	20	1	8.00	0.00	1.00	7.00
............................................................................................TTGGTGTTACTTCTTGCAGTGT.............................................................	22	1	8.00	0.00	0.00	8.00
.............................................GCTGTAAATTGTAATCATCAAA............................................................................................................	22	1	7.00	0.00	0.00	7.00
............................................................................................TTGGTGTTACTTCTTACAGTG..............................................................	21	1	6.00	0.00	5.00	1.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAA............................................................	23	1	5.00	0.00	0.00	5.00
.............................................GCTGTAAATTGTAATCATC...............................................................................................................	19	1	5.00	0.00	0.00	5.00
...........................................................................................CTTGGTGTTACTTCTTACAGTGA.............................................................	23	1	5.00	0.00	5.00	0.00
.............................................GCTGTAAATTGTAATCATCAAAGC..........................................................................................................	24	1	4.00	0.00	1.00	3.00
............................................................................................TTGGTGTTGCTTCTTGCAGTGA.............................................................	22	1	4.00	0.00	0.00	4.00
............................................................................................TTGGTGTTACTTCTTGTAGTGA.............................................................	22	1	4.00	0.00	4.00	0.00
............................................................................................TTGGTGTTACTTCTTGCGGTG..............................................................	21	1	3.00	1.00	0.00	2.00
...........................................................................................CTTGGTGTTACTTCTTGCAGTGA.............................................................	23	1	3.00	0.00	1.00	2.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAT............................................................	23	1	3.00	0.00	1.00	2.00
.............................................GCTGTAAATTGTAATCATCAAAG...........................................................................................................	23	1	2.00	0.00	0.00	2.00
............................................................................................TTGGTGTTACTTCTTACGGTGA.............................................................	22	1	2.00	0.00	2.00	0.00
............................................................................................TTGGTGTTACTTCTTATAGTGA.............................................................	22	1	2.00	0.00	1.00	1.00
............................................................................................TTGCTGTTACTTCTTGCAGTGA.............................................................	22	1	2.00	0.00	0.00	2.00
............................................................................................TTGGTGTTACTTCTTACAGTGT.............................................................	22	1	2.00	0.00	2.00	0.00
.............................................................................................TTGTGTTACTTCTTGCAGTGA.............................................................	21	1	2.00	0.00	1.00	1.00
............................................................................................TTGGTGTTATTTCTTGCAGTGA.............................................................	22	1	2.00	0.00	2.00	0.00
............................................CGCTGTAAATTGTAATCATCAA.............................................................................................................	22	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTTCTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00
.............................................GCTGTAAATTGTAATCATCAAAGCG.........................................................................................................	25	1	1.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTGCGGT...............................................................	20	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTGCAGTTA.............................................................	22	1	1.00	0.00	1.00	0.00
.......................TTCCGTGGCTGGCAT--CGCTC..................................................................................................................................	20	1	1.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGT...............................................................	20	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTCGCAGTG..............................................................	21	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACATCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00
............................................................................................TCGGTGTTACTTCTTGCAGTG..............................................................	21	1	1.00	0.00	0.00	1.00
.............................................................................................TTGTGTTACTTCTTACAGTGA.............................................................	21	1	1.00	0.00	1.00	0.00
............................................................................................TTGGTGCTACTTCTTGCAGTG..............................................................	21	1	1.00	0.00	0.00	1.00
.............................................GCTGTAAATTGTAATAATCAAAGC..........................................................................................................	24	1	1.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACACTGA.............................................................	22	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTGCATTGA.............................................................	22	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTCCTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTGCTTCTTACAGTG..............................................................	21	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGCTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00
........................................................TAATCATCAAAACGTT-GT------..............................................................................................	18	1	1.00	0.00	1.00	0.00
...............................................................................................CTGTTACTTCTTGCAGTGA.............................................................	19	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTATTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACTGTGA.............................................................	22	1	1.00	0.00	1.00	0.00
............................................................................................TTGGTTTTACTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAC............................................................	23	1	1.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGCGA.............................................................	22	1	1.00	0.00	1.00	0.00
............................................................................................TTTGTGTTACTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00
...........................................................................................CTTGGTGTTACTTCTTGCAGT...............................................................	21	1	1.00	0.00	0.00	1.00
...........................................................................................CTTGGTGTTACTTCTTACAGTG..............................................................	22	1	1.00	0.00	1.00	0.00
.............................................GCTGTAAATTTTAATCCTC...............................................................................................................	19	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTTTTGCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00
............................................................................................TTGxxGTTACTTCTTACAGTGA.............................................................	20	1	1.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAG............................................................	23	1	1.00	0.00	1.00	0.00
...........................................................................................CTTGGTGTTATTTCTTGCAGTGA.............................................................	23	1	1.00	0.00	1.00	0.00
............................................................................................TTGGTCTTACTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTACAGTGG.............................................................	22	1	1.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTTTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00

droYak2

TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----AAC	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
............................................................................................TTGGTGTTACTTCTTGCAGTGA.............................................................	22	1	151.00	25.00	6.00	1.00	15.00	104.00
............................................................................................TTGGTGTTACTTCTTACAGTGA.............................................................	22	1	78.00	63.00	0.00	2.00	2.00	11.00
............................................................................................TTGGTGTTACTTCTTGCGGTGA.............................................................	22	1	35.00	2.00	3.00	2.00	3.00	25.00
.............................................GCTGTAAATTGTAATCATCAAAG...........................................................................................................	23	1	30.00	1.00	0.00	0.00	0.00	29.00
.............................................GCTGTAAATTGTAATCATCAAAGC..........................................................................................................	24	1	29.00	0.00	1.00	0.00	0.00	28.00
............................................................................................TTGGTGTTACTTCTTGCAGTGG.............................................................	22	1	20.00	0.00	0.00	0.00	0.00	20.00
............................................................................................TTGGTGTTACTTCTTGCAGTG..............................................................	21	1	11.00	1.00	1.00	1.00	6.00	2.00
.......................TTCCGTGGCTGGCAT--CGCTC..................................................................................................................................	20	1	9.00	0.00	0.00	0.00	0.00	9.00
.............................................GCTGTAAATTGTAATCATCA..............................................................................................................	20	1	9.00	0.00	5.00	0.00	4.00	0.00
............................................................................................TTGGTGTTACTTCTTGCGGTG..............................................................	21	1	7.00	0.00	2.00	0.00	2.00	3.00
..............A--------TTCCGTGGCTGGCAT--CGCTC..................................................................................................................................	21	1	5.00	0.00	0.00	0.00	0.00	5.00
...........................................................................................CTTGGTGTTACTTCTTGCAGTGA.............................................................	23	1	3.00	0.00	0.00	0.00	0.00	3.00
.............................................GCTGTAAATTGTAATCATC...............................................................................................................	19	1	3.00	0.00	0.00	0.00	0.00	3.00
.............................................GCTGTAAATTGTAATCATCAAAGCG.........................................................................................................	25	1	2.00	1.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTACAGTGAA............................................................	23	1	2.00	1.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAA............................................................	23	1	2.00	0.00	0.00	0.00	0.00	2.00
............................................................................................TTGGTGTTACTTCTTGCGG................................................................	19	1	2.00	0.00	0.00	0.00	0.00	2.00
............................................................................................TTGGTGTTCCTTCTTACAGTGA.............................................................	22	1	2.00	1.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTGCAGTT..............................................................	21	1	2.00	0.00	1.00	0.00	1.00	0.00
............................................................................................TTGGAGTTACTTCTTACAGTGA.............................................................	22	1	2.00	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGG.............................................................	22	1	2.00	1.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAT............................................................	23	1	2.00	1.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCCGTGA.............................................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
...........................................................................................................................TAC------------------------GTACACA--GAGAGAAA-----AAC	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.............................................GCTGTAAATTGTAATCGTCA..............................................................................................................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................GCTGTAAATTGTAATCATCCAAGCG.........................................................................................................	25	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................GCTGCAAATTGTAATCATCAAAG...........................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
.............................................GCTGTAAATTGTAATCATCAA.............................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTTA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.............................................GCGGTAAATTGTAATCATCAGA............................................................................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGCGA.............................................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.............................................GCTGAAAATTGTAATCATCAAAG...........................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTACGGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTGGCGTTACTTCTTGCAGTGA.............................................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCATTGA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
...........................................................................................CTTGGTGTTACTTCTTGCAGTGT.............................................................	23	1	1.00	0.00	1.00	0.00	0.00	0.00
.............................................GATGTAAATTGTAATCATCA..............................................................................................................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................CTGGTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGTGA.............................................................	23	1	1.00	1.00	0.00	0.00	0.00	0.00
..........................................................................................TCTTGGTGTTACTTCTTGCAGTGA.............................................................	24	1	1.00	1.00	0.00	0.00	0.00	0.00
...........................................................................................CTTGGTGTTACTTCTTGCGGTGA.............................................................	23	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................TTGGGGTTACTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTTCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.......................TTCCGTAGCTGGCAT--CGCTC..................................................................................................................................	20	1	1.00	0.00	0.00	0.00	0.00	1.00
.......................TTCCGTGGCTGGCAT--CCCTC..................................................................................................................................	20	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTACATTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
........................TCCGTGGCTGGCAT--CGCTC..................................................................................................................................	19	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTAGTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.............AA--------TTCCGTGGCTGGGAT--CGCTC..................................................................................................................................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTGCAG................................................................	19	1	1.00	0.00	0.00	0.00	0.00	1.00
.............................................GCTGTACATTGTAATCCTCAAAGC..........................................................................................................	24	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGT.............................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00

droEre2

TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCCCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACC	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
............................................................................................TTGGTGTTACTTCTTGCAGTGA.............................................................	22	1	526.00	22.00	16.00	0.00	488.00
............................................................................................TTGGTGTTACTTCTTACAGTGA.............................................................	22	1	146.00	66.00	1.00	0.00	79.00
............................................................................................TTGGTGTTACTTCTTGCAGTG..............................................................	21	1	110.00	1.00	7.00	0.00	102.00
............................................................................................TTGGTGTTACTTCTTGCGGTGA.............................................................	22	1	68.00	0.00	1.00	0.00	67.00
.............................................GCTGTAAATTGTAATCATCA..............................................................................................................	20	1	44.00	0.00	6.00	0.00	38.00
.............................................GCTGTAAATTGTAATCATCAAAG...........................................................................................................	23	1	25.00	1.00	2.00	0.00	22.00
.............................................GCTGTAAATTGTAATCATCAA.............................................................................................................	21	1	22.00	0.00	0.00	0.00	22.00
.............................................GCTGTAAATTGTAATCATCAAA............................................................................................................	22	1	21.00	0.00	0.00	0.00	21.00
............................................................................................TTGGTGTTACTTCTTGCGGTG..............................................................	21	1	20.00	0.00	0.00	0.00	20.00
............................................................................................TTGGTGTTACTTCTTGCAGTGT.............................................................	22	1	18.00	1.00	0.00	0.00	17.00
.............................................GCTGTAAATTGTAATCATCAAAGC..........................................................................................................	24	1	15.00	1.00	0.00	0.00	14.00
............................................................................................TTGGTGTTGCTTCTTGCAGTGA.............................................................	22	1	12.00	0.00	1.00	0.00	11.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAA............................................................	23	1	11.00	0.00	0.00	0.00	11.00
............................................................................................TTGGTGTTACTTCTTACAGTTA.............................................................	22	1	9.00	6.00	1.00	0.00	2.00
............................................................................................TTGGTGTTACTTCTTACAGTG..............................................................	21	1	9.00	5.00	0.00	0.00	4.00
............................................................................................TTGGTGTTACTTCTTGTAGTGA.............................................................	22	1	7.00	0.00	2.00	0.00	5.00
............................................................................................TTGGTGTTACTTCTTGCAGTGG.............................................................	22	1	6.00	0.00	0.00	0.00	6.00
............................................................................................TTTGTGTTACTTCTTGCAGTGA.............................................................	22	1	6.00	0.00	0.00	0.00	6.00
............................................................................................TTGGTGTTACTTCTTGCAGT...............................................................	20	1	6.00	0.00	0.00	0.00	6.00
...........................................................................................CTTGGTGTTACTTCTTGCAGTGA.............................................................	23	1	5.00	0.00	0.00	0.00	5.00
............................................................................................TTGGTGTTACTTATTGCAGTGA.............................................................	22	1	5.00	0.00	0.00	0.00	5.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAT............................................................	23	1	5.00	0.00	1.00	0.00	4.00
............................................................................................TTGGTGTTACTTCTTGAAGTGA.............................................................	22	1	4.00	0.00	0.00	0.00	4.00
............................................................................................TTGGTGTTACTTCTTGCGGT...............................................................	20	1	4.00	0.00	0.00	0.00	4.00
............................................................................................TTGGTGTTACTTCTTGCAGTTA.............................................................	22	1	4.00	1.00	0.00	0.00	3.00
............................................................................................TTGGTGTTACTTCTTTCAGTGA.............................................................	22	1	4.00	2.00	0.00	0.00	2.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAG............................................................	23	1	4.00	0.00	0.00	0.00	4.00
............................................................................................TTGGGGTTACTTCTTGCAGTGA.............................................................	22	1	3.00	0.00	0.00	0.00	3.00
...............................................................................................TTGTTACTTCTTGCAGTGA.............................................................	19	1	3.00	0.00	0.00	0.00	3.00
............................................................................................TTGGTTTTACTTCTTGCAGTGA.............................................................	22	1	3.00	0.00	0.00	0.00	3.00

droEug1

TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACACAGAAAGAAA-----ATA

Size

Hit Count

Total Norm

droBia1

TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCCCGCTGTAAATTGTAATCATCAAAGCGTT-TTT-----CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--CAGAGAAA-----ACC

Size

Hit Count

Total Norm

droTak1

TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAAAAAATAAC

Size

Hit Count

Total Norm

droEle1

TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TTT-----CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGCCC------------------------GTACACA--GAAAGAAATAA--AAA

Size

Hit Count

Total Norm

droRho1

TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGTTCGCTGTAAATTGTAATCATCAAAGCGTT-TTT-----TTCAGAACCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--GAAAGAAA-----ACT

Size

Hit Count

Total Norm

droFic1

TGCATGTGAGAG-AA--------TTCCGTGGCTGGCAT--CGCCCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC------------------------GTACACA--AAGAGAAA-----ACC

Size

Hit Count

Total Norm

droKik1

TCA----GAGCGAAA--------TTCCTTGGCTGGCAG--CGCACACTGTAAATTGTAATCATCAAAGCGTT-TTT-----CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGCGCCAGTAC-AC---------------------GTACACACGGCAAGAAA-----GAA

Size

Hit Count

Total Norm

droAna3

TGCATGTGAGAA-AA--------TTCCGTGGCTGGCAT--CGTTCACTGTAAATTGTAACCATCAAAGCGTT-TTTT----ATCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGAGCCAGCTG------------------------GAGCACA--TATTAAAA-----A--	Size	Hit Count	Total Norm	V105 Male body	V106 Head	V055 Unknown	V039 Embryo
............................................................................................TTGGTGTTACTTCTTGCAGTGA.............................................................	22	1	137.00	5.00	117.00	12.00	3.00
............................................................................................TTGGTGTTACTTCTTACAGTGA.............................................................	22	1	127.00	4.00	101.00	10.00	12.00
............................................................................................TTGGTGTTGCTTCTTGCAGTGA.............................................................	22	1	50.00	2.00	45.00	3.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTG..............................................................	21	1	45.00	1.00	40.00	3.00	1.00
............................................................................................TTGGTGTTACTTCTTACAGTG..............................................................	21	1	22.00	1.00	19.00	1.00	1.00
............................................................................................TTGGTGTTACTTCTTGCAGT...............................................................	20	1	16.00	1.00	15.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGT.............................................................	22	1	15.00	0.00	13.00	2.00	0.00
.............................................ACTGTAAATTGTAACCATCAAAGC..........................................................................................................	24	1	13.00	0.00	12.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTGCGGTGA.............................................................	22	1	12.00	0.00	12.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAA............................................................	23	1	7.00	0.00	5.00	2.00	0.00
.............................................ACTGTAAATTGTAACCATCAAAG...........................................................................................................	23	1	5.00	0.00	5.00	0.00	0.00
.............................................ACTGTAAATTGTAACCATCAAA............................................................................................................	22	1	3.00	0.00	3.00	0.00	0.00
.............................................ACTGTAAATTGTAACCATCA..............................................................................................................	20	1	3.00	0.00	3.00	0.00	0.00
............................................................................................TTTGTGTTACTTCTTGCAGTGA.............................................................	22	1	3.00	1.00	2.00	0.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGTG..............................................................	22	1	3.00	0.00	1.00	1.00	1.00
.............................................ACTGTAGATTGTAACCATCAAA............................................................................................................	22	1	2.00	0.00	2.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTA..............................................................	21	1	2.00	1.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGT...............................................................	20	1	2.00	0.00	1.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAG................................................................	19	1	2.00	0.00	2.00	0.00	0.00
............................................................................................TTGGTGTTGCTTCTTGCAGT...............................................................	20	1	2.00	0.00	2.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACATTGA.............................................................	22	1	2.00	0.00	1.00	0.00	1.00
............................................................................................TTGGTGTTAATTCTTGCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGGGTTACTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTAGTGTTACTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCATTG..............................................................	21	1	1.00	0.00	1.00	0.00	0.00
.............................................ACTGTAAATTGTAACCATCAA.............................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTTGTGTTACTTCTTGCAGTG..............................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTA..............................................................	21	1	1.00	0.00	0.00	0.00	1.00
..............................................................................................................GCGAGTGAGGCAGCTG------------------------GAGC.....................	20	1	1.00	1.00	0.00	0.00	0.00
.............................................GCTGTAAATTGTAACCATCAA.............................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGGGTTACTTCTTGCAGTG..............................................................	21	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGC.............................................................	22	1	1.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACCTCTTGCAGTG..............................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGT.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTATTGCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGAAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................CTGGTGTTACTTCTTGCAGTG..............................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGAAA...........................................................	24	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACGGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTTTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TAGGTGTTACTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TCGTTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TGGGTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGGTACTTCTTACAGTGAA............................................................	23	1	1.00	0.00	0.00	0.00	1.00
............................................................................................TCGGTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAC............................................................	23	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACACTGA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00
.............................................ACTGTAAATTGTAACCATCAAAGCT.........................................................................................................	25	1	1.00	0.00	1.00	0.00	0.00
..............................................................................................GGTGTTACTTCTTGCAGTGA.............................................................	20	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTTTTACTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
.............................................ACTGTAAATTGTAACCATCAAAGT..........................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGTAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCxTGCAGTGA.............................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAAT...........................................................	24	1	1.00	0.00	1.00	0.00	0.00
.............................................................................................TGGTGTTACTTCTTACAGTGA.............................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGATT...........................................................	24	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTTAA............................................................	23	1	1.00	0.00	0.00	0.00	1.00
...........................................................................................CTTGGTGTTACTTCTTACAGTGT.............................................................	23	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTCACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTCA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAATGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGAGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
..........................................................................................................TACACTGACTGAGCCAGC...................................................	18	1	1.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCGGTG..............................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGCGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTATAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTTA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTTCAGTGT.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTTGTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
.............................................ACTGTAAATTGTxATCATCA..............................................................................................................	19	1	1.00	0.00	1.00	0.00	0.00

droBip1

TGCATGTGAGAA-AA--------TTCCGTGGCTGGCAT--CGTTCACTGTAAATTGTAACCATCAAAGCGTT-TTTT----ATCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGAGCCAGCTG------------------------GAGCACA------------------

Size

Hit Count

Total Norm

dp4

AGCATGTGAGAG-AGCGGCTCCTTTCCCTGGACCCCAT--CGCTCGCTGTAAATTGTAATGGCCAAAGCTTT-TTTG----TTGGTAGCAGCTTGGTGTTACTTCTTACAGTGAGTGTG--------------------------------------------------------	Size	Hit Count	Total Norm	V112 Male body	V043 Embryo	V051 Head	M022 Male body
............................................................................................TTGGTGTTACTTCTTACAGTGA.............................................................	22	1	149.00	5.00	109.00	35.00	0.00
.............................................GCTGTAAATTGTAATGGCCAAAGC..........................................................................................................	24	1	14.00	0.00	10.00	4.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGT.............................................................	22	1	11.00	0.00	3.00	8.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTG..............................................................	21	1	9.00	1.00	2.00	6.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGTGA.............................................................	23	1	8.00	0.00	6.00	2.00	0.00
.............................................GCTGTAAATTGTAATGGCCAAAG...........................................................................................................	23	1	5.00	0.00	0.00	5.00	0.00
.............................................GCTGTAAATTGTAATGGCCAAA............................................................................................................	22	1	5.00	0.00	0.00	5.00	0.00
.............................................GCTGTAAATTGTAATGGCCA..............................................................................................................	20	1	4.00	0.00	0.00	4.00	0.00
............................................................................................TTGGAGTTACTTCTTACAGTG..............................................................	21	1	2.00	0.00	1.00	1.00	0.00
............................................................................................TTGGAGTTACTTCTTACAGTGA.............................................................	22	1	2.00	0.00	2.00	0.00	0.00
.............................................GCTGTAAATTGTAATGGCCAA.............................................................................................................	21	1	2.00	0.00	0.00	2.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGGGA.............................................................	22	1	2.00	0.00	2.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGT...............................................................	20	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGGGTTACTTCTCACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTTTTATAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTATTTCTTTCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAG................................................................	19	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTCCAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACACTG..............................................................	21	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTGCTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGC.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
.............................................GCTGTAAATTGTAATGGCCAAAGCT.........................................................................................................	25	1	1.00	0.00	1.00	0.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGT...............................................................	21	1	1.00	0.00	1.00	0.00	0.00
.............................................GCGGTAAATTGTAATGGCCAA.............................................................................................................	21	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTAGTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
.............................................GCTGTAAATTGCAATGGCCAAAGC..........................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
.............................................GCTGTAAATTGTTATGGCCAAAGT..........................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCGTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTATAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACGTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTATTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
................................................................................................TGTTACTTCTTACAGTGA.............................................................	18	1	1.00	0.00	1.00	0.00	0.00
.............................................GCTGTAAATTGTAATGTCCAAAGC..........................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
.............................................GCTGTAACTTGTAATGGCCAAAGC..........................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TGGGCGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
...........................................................................................CTTGGTGTTACTTGTTACAGTGC.............................................................	23	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTAATGTTACTTCTTACAGTG..............................................................	21	1	1.00	0.00	1.00	0.00	0.00
.............................................GCGGTAAATTGTAATGGACA..............................................................................................................	20	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGATTTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
.............................................GCTGTAAATTTTAATGGCCAAAAC..........................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
..............................................CTGTAAATTGTAATGGCCAAAGCT.........................................................................................................	24	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGAA............................................................	23	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGCGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTATTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TGGGTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTCACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
.............................................GCTGGAAATTGGAATGGCCAAAG...........................................................................................................	23	1	1.00	0.00	0.00	1.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGTG..............................................................	22	1	1.00	0.00	1.00	0.00	0.00

droPer1

AGCATGTGAGAG-AGCGGCTCCTTTCCCTGGACCCCAT--CGCTCGCTGTAAATTGTAATGGCCAAAGCTTT-TTTG----TTGGTAGCAGCTTGGTGTTACTTCTTACAGTGAGTGTG--------------------------------------------------------	Size	Hit Count	Total Norm	V111 Male body	V042 Embryo	V050 Head	V057 Head	M021 Embryo
............................................................................................TTGGTGTTACTTCTTACAGTGA.............................................................	22	1	169.00	4.00	46.00	53.00	42.00	24.00
............................................................................................TTGGTGTTACTTCTTACAGTG..............................................................	21	1	17.00	1.00	4.00	9.00	3.00	0.00
.............................................GCTGTAAATTGTAATGGCCAAAG...........................................................................................................	23	1	9.00	0.00	0.00	5.00	4.00	0.00
.............................................GCTGTAAATTGTAATGGCCAAAGCT.........................................................................................................	25	1	9.00	0.00	1.00	2.00	6.00	0.00
.............................................GCTGTAAATTGTAATGGCCAAA............................................................................................................	22	1	7.00	0.00	0.00	3.00	4.00	0.00
.............................................GCTGTAAATTGTAATGGCCA..............................................................................................................	20	1	6.00	0.00	0.00	2.00	4.00	0.00
.....................................................................TTT-TTTG----TTGGTAGCAGC...................................................................................	18	1	6.00	0.00	0.00	0.00	3.00	3.00
............................................................................................TTGGTGTTACTTCTTACAGTGG.............................................................	22	1	5.00	0.00	0.00	0.00	0.00	5.00
...........................................................................................CTTGGTGTTACTTCTTACAGTGA.............................................................	23	1	5.00	0.00	1.00	3.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGT.............................................................	22	1	5.00	0.00	0.00	2.00	3.00	0.00
.......................TTCCCTGGACCCCAT--CGCTC..................................................................................................................................	20	1	4.00	0.00	0.00	2.00	2.00	0.00
.............................................GCTGTAAATTGTAATGGCCAA.............................................................................................................	21	1	3.00	0.00	0.00	0.00	3.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGT...............................................................	21	1	3.00	0.00	0.00	1.00	1.00	1.00
...............................................TGTAAATTGTAATGGCCAAAGCT.........................................................................................................	23	1	3.00	0.00	0.00	1.00	2.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGTG..............................................................	22	1	3.00	1.00	0.00	2.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTTA.............................................................	22	1	2.00	0.00	1.00	0.00	1.00	0.00
.GCATGTGGGAG-AGGGGCTC..........................................................................................................................................................	19	1	2.00	2.00	0.00	0.00	0.00	0.00
.............................................GCTGTAAATTGTAATGGCCAAAT...........................................................................................................	23	1	2.00	0.00	0.00	0.00	2.00	0.00
............................................................................................TTGGGGTTACTTCTTACAGTGA.............................................................	22	1	2.00	0.00	2.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGT...............................................................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
...................................................................................................TACTTCxTACAGTGACTGT.........................................................	18	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTGATGTTACTTCTTACAGTTA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACATTGT.............................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
.......................TTCCCTGGACCCCAT--CCCGC..................................................................................................................................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................GCTGTAAATTGGAATGGCAAA.............................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGCTACTTCTCACAGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACGGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
.............................................GCTGTAAATTGCAATGGCCAAAG...........................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
...........................................................................................CTTGGGGTTACTTCTTACAGTGT.............................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................GCTGTAAATTGCAATGGCCCAA............................................................................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................GCTGTAAATTGTAATGCCCAAAG...........................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TGGGTGTTAATTCTTACAGTG..............................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................GCTGTAAATTGTAATGGCAAA.............................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................GTGGTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTCTTACATTGA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................GCTGTAAATTGTAATGGCC...............................................................................................................	19	1	1.00	0.00	0.00	0.00	1.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGTGT.............................................................	23	1	1.00	0.00	1.00	0.00	0.00	0.00
.............................................GCTGTAAATTGTAATGGCCCAA............................................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTAA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.............................................GCTGTAAATTGTAATGGCCAAT............................................................................................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGAA............................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACCTCTTACCGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.............................................GCTGTAGATTGTAATGGCCAAAGC..........................................................................................................	24	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................GCTGTTAATTGTAATGGCCA..............................................................................................................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
........................TCCCTGGACCCCAT--CGCTC..................................................................................................................................	19	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGCTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGCTAGTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................TTGGTGTTACTTGTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
.....................................................................TTT-TTTG----TTGGTATCAGC...................................................................................	18	2	0.50	0.00	0.00	0.50	0.00	0.00
............................................................................................TTGGTGGTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................................................................TGGTGTTACTTCTTACAGTGA.............................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACCGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00

droWil1

AC------------A--------TTAAACGGCCCAATA--CGCTCGCTGTAAATTGTAGCAATCAAAGCGTTGCCTTTTGCCTC---ACAGCTTGGTGTTACTTCTTACAGTGAGTGTG--------------------------------------------------------	Size	Hit Count	Total Norm	V117 Male body	V118 Embryo	V119 Head	M020 Head
............................................................................................TTGGTGTTACTTCTTACAGTGA.............................................................	22	1	4756.00	8.00	540.00	3777.00	431.00
............................................................................................TTGGTGTTACTTCTTACAGTG..............................................................	21	1	440.00	0.00	28.00	399.00	13.00
............................................................................................TTGGTGTTACTTCTTACAGTGT.............................................................	22	1	117.00	0.00	7.00	110.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGG.............................................................	22	1	82.00	0.00	2.00	2.00	78.00
.............................................GCTGTAAATTGTAGCAATCAAAGC..........................................................................................................	24	1	72.00	0.00	12.00	8.00	52.00
............................................................................................TTGGTGTTACTTCTTACAGT...............................................................	20	1	71.00	1.00	1.00	66.00	3.00
............................................................................................TTGGTGTTACTTCTTACAGTGAA............................................................	23	1	19.00	0.00	1.00	18.00	0.00
............................................................................................CTGGTGTTACTTCTTACAGTGA.............................................................	22	1	17.00	0.00	0.00	17.00	0.00
............................................................................................TTGGTGTTACTTATTACAGTGA.............................................................	22	1	16.00	0.00	3.00	13.00	0.00
............................................................................................TTGGTGTTACTTCTTAAAGTGA.............................................................	22	1	14.00	0.00	1.00	13.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGA.............................................................	22	1	13.00	0.00	3.00	10.00	0.00
............................................................................................TTGGTGTTAATTCTTACAGTGA.............................................................	22	1	13.00	0.00	0.00	13.00	0.00
.............................................................................................TTGTGTTACTTCTTACAGTGA.............................................................	21	1	11.00	0.00	3.00	8.00	0.00
............................................................................................TTGGTGTTACTTCTTACAATGA.............................................................	22	1	10.00	0.00	0.00	10.00	0.00
............................................................................................TTGGAGTTACTTCTTACAGTGA.............................................................	22	1	10.00	0.00	1.00	9.00	0.00
............................................................................................TTGGCGTTACTTCTTACAGTGA.............................................................	22	1	9.00	0.00	0.00	8.00	1.00
............................................................................................TTGGTGTTACTTCTTACAGTTA.............................................................	22	1	9.00	0.00	0.00	9.00	0.00
............................................................................................TTGGTGTTACCTCTTACAGTGA.............................................................	22	1	9.00	0.00	1.00	8.00	0.00
............................................................................................TTGGTGTTACTTTTTACAGTGA.............................................................	22	1	9.00	0.00	0.00	9.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGTGA.............................................................	23	1	9.00	0.00	2.00	7.00	0.00
............................................................................................TTGGTGTTACTTCTTATAGTGA.............................................................	22	1	8.00	0.00	0.00	8.00	0.00
............................................................................................TTTGTGTTACTTCTTACAGTGA.............................................................	22	1	8.00	0.00	2.00	6.00	0.00
............................................................................................TTGGTGTCACTTCTTACAGTGA.............................................................	22	1	7.00	0.00	0.00	6.00	1.00
............................................................................................TTGATGTTACTTCTTACAGTGA.............................................................	22	1	7.00	0.00	0.00	7.00	0.00
.............................................................................................TGGTGTTACTTCTTACAGTGA.............................................................	21	1	7.00	0.00	0.00	7.00	0.00
............................................................................................TTGGTATTACTTCTTACAGTGA.............................................................	22	1	6.00	0.00	1.00	5.00	0.00
............................................................................................TTGGTGTTACTCCTTACAGTGA.............................................................	22	1	6.00	0.00	2.00	4.00	0.00
............................................................................................TTGGTGTTACTTCTTACAG................................................................	19	1	6.00	0.00	0.00	3.00	3.00
............................................................................................TTGGTGTTACTTCCTACAGTGA.............................................................	22	1	6.00	0.00	2.00	4.00	0.00
............................................................................................TTGGTTTTACTTCTTACAGTGA.............................................................	22	1	6.00	0.00	2.00	4.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGCGA.............................................................	22	1	5.00	0.00	0.00	4.00	1.00
............................................................................................TTGGGGTTACTTCTTACAGTGA.............................................................	22	1	5.00	0.00	1.00	3.00	1.00
............................................................................................TTGGTGTTGCTTCTTACAGTGA.............................................................	22	1	5.00	0.00	0.00	5.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTAA.............................................................	22	1	5.00	0.00	0.00	5.00	0.00
............................................................................................TTGGTGTTACTTCTTACCGTGA.............................................................	22	1	5.00	0.00	1.00	4.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGC.............................................................	22	1	5.00	1.00	0.00	4.00	0.00
............................................................................................GTGGTGTTACTTCTTACAGTGA.............................................................	22	1	5.00	0.00	0.00	5.00	0.00
............................................................................................TTGGTGTTATTTCTTACAGTGA.............................................................	22	1	4.00	0.00	0.00	4.00	0.00
............................................................................................TTGxxGTTACTTCTTACAGTGA.............................................................	20	1	4.00	0.00	0.00	4.00	0.00
............................................................................................TTAGTGTTACTTCTTACAGTGA.............................................................	22	1	4.00	0.00	0.00	4.00	0.00
............................................................................................TTGGTGTTACTTCTTACACTGA.............................................................	22	1	4.00	0.00	0.00	4.00	0.00
............................................................................................TTGGTGTTACTTCTTACATTGA.............................................................	22	1	4.00	0.00	0.00	4.00	0.00
............................................................................................TTGGTGTTTCTTCTTACAGTGA.............................................................	22	1	4.00	0.00	1.00	3.00	0.00
............................................................................................ATGGTGTTACTTCTTACAGTGA.............................................................	22	1	4.00	0.00	0.00	4.00	0.00
............................................................................................TCGGTGTTACTTCTTACAGTGA.............................................................	22	1	4.00	0.00	2.00	2.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTCA.............................................................	22	1	4.00	0.00	0.00	4.00	0.00
............................................................................................TTGTTGTTACTTCTTACAGTGA.............................................................	22	1	4.00	0.00	1.00	3.00	0.00
............................................................................................TTCGTGTTACTTCTTACAGTGA.............................................................	22	1	4.00	0.00	0.00	4.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGAT............................................................	23	1	4.00	0.00	1.00	3.00	0.00
............................................................................................TTGGTGTTACTTCTCACAGTGA.............................................................	22	1	3.00	0.00	0.00	3.00	0.00
............................................................................................TTGCTGTTACTTCTTACAGTGA.............................................................	22	1	3.00	0.00	0.00	3.00	0.00
............................................................................................TGGGTGTTACTTCTTACAGTGA.............................................................	22	1	3.00	0.00	0.00	3.00	0.00
............................................................................................TTGGTGTTACTACTTACAGTGA.............................................................	22	1	3.00	0.00	0.00	3.00	0.00
............................................................................................TTGGTGTTACTTCTTAxAGTGA.............................................................	21	1	3.00	0.00	0.00	3.00	0.00
............................................................................................TTGGTCTTACTTCTTACAGTGA.............................................................	22	1	3.00	0.00	0.00	3.00	0.00
............................................................................................TAGGTGTTACTTCTTACAGTGA.............................................................	22	1	3.00	0.00	0.00	3.00	0.00
............................................................................................TTGGTGTTCCTTCTTACAGTGA.............................................................	22	1	3.00	0.00	0.00	3.00	0.00
............................................................................................CTGGTGTTACTTCTTACAGTG..............................................................	21	1	3.00	0.00	0.00	3.00	0.00
............................................................................................TTGGTGCTACTTCTTACAGTG..............................................................	21	1	3.00	0.00	0.00	3.00	0.00

droVir3

-------------------------------------------CCGCTGTAAAATGTAATCATCAGAGCGTC-CT------CTC--AACCGCTTGGTGTTACTTCTTACAGTGAGTGCGACGGCCC------------------------AAGGTCC--GACCGTAAATC--ATA	Size	Hit Count	Total Norm	V116 Male body	V053 Unknown	V047 Embryo	M027 Male body	M028 Head
............................................................................................TTGGTGTTACTTCTTACAGTGA.............................................................	22	1	198.00	13.00	44.00	87.00	0.00	54.00
............................................................................................TTGGTGTTACTTCTTACAGTG..............................................................	21	1	17.00	6.00	4.00	3.00	1.00	3.00
.............................................GCTGTAAAATGTAATCATCAGAGC..........................................................................................................	24	1	14.00	1.00	6.00	1.00	1.00	5.00
............................................................................................TTGGTGTTACTTCTTACAGTGT.............................................................	22	1	13.00	7.00	3.00	3.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGG.............................................................	22	1	12.00	0.00	0.00	0.00	0.00	12.00
............................................................................................TTGGTGTTACTTCTTACAGTTA.............................................................	22	1	8.00	0.00	1.00	7.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGCGA.............................................................	22	1	3.00	0.00	0.00	2.00	0.00	1.00
.............................................GCTGTAAAATGTAATCATCAGA............................................................................................................	22	1	3.00	0.00	0.00	0.00	0.00	3.00
............................................................................................TTGGTGTTACTTCTTACATTGA.............................................................	22	1	3.00	0.00	0.00	3.00	0.00	0.00
............................................................................................TGGGTGTTACTTCTTACAGTGAC............................................................	23	1	2.00	0.00	2.00	0.00	0.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGTGA.............................................................	23	1	2.00	0.00	1.00	1.00	0.00	0.00
.............................................GCTGTAAGATGTAATCATCAGGG...........................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTGGAGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
...........................................CCGCTGTAAAATGTAATCATCAGAGC..........................................................................................................	26	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TGGGTGTTACTGCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
.............................................GCTGTAAAATGTAATCATCAGAG...........................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTACACTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
.............................................GCTGTAAAATGTAATCATCATAG...........................................................................................................	23	1	1.00	0.00	1.00	0.00	0.00	0.00
.............................................GCTGTAGGATGTAATCATCAGAGC..........................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00	0.00
............................................................................................CTGGTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................TTGGACTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGCTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGC.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACATTG..............................................................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCGGTG..............................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
.............................................GCTGCAAAATGTAATCATCAGAG...........................................................................................................	23	1	1.00	0.00	1.00	0.00	0.00	0.00
.............................................................................................TGGTGTTACTTCTTACAGTGA.............................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTAGTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
............................................................................................TGGGTGGTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGGGG.............................................................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTCTTACAGT...............................................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGAGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGAT............................................................	23	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................TTGGCTTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTTCTTCTTACAGTG..............................................................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
.............................................GCTGTAAAATGTAATCATCAGACC..........................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACATTTA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTCA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00

droMoj3

----------------------------------------CGACCGCTGTAAATTGTAATCATCAAAGCGTC-TG------CTA--AATCGCTTGGTGTTACTTCTTACAGTGAGCGCGGCGCTCGAAACTACAGTGAAACTAGCATAAAGTGAACAAGGAAAGGAA-----A--	Size	Hit Count	Total Norm	V110 Male body	V056 Unknown	V049 Head	V041 Embryo
............................................................................................TTGGTGTTACTTCTTACAGTGA.............................................................	22	1	164.00	14.00	56.00	43.00	51.00
............................................................................................TTGGTGTTACTTCTTACAGTGT.............................................................	22	1	7.00	0.00	3.00	4.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTG..............................................................	21	1	7.00	0.00	3.00	2.00	2.00
.............................................GCTGTAAATTGTAATCATCA..............................................................................................................	20	1	6.00	0.00	3.00	3.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTTA.............................................................	22	1	3.00	0.00	0.00	3.00	0.00
.............................................GCTGTAAATTGTAATCATCAAAG...........................................................................................................	23	1	3.00	0.00	0.00	2.00	1.00
.............................................GCTGTAAATTGTAATCATCAAAGC..........................................................................................................	24	1	3.00	0.00	1.00	1.00	1.00
............................................................................................TTGGTGTTACTTCTTACAGT...............................................................	20	1	2.00	0.00	0.00	2.00	0.00
............................................................................................TTGGCGTTACTTCTTACAGTGA.............................................................	22	1	2.00	0.00	2.00	0.00	0.00
.............................................GCTGTAAATTGTAATCATC...............................................................................................................	19	1	2.00	0.00	0.00	2.00	0.00
...........................................................................................CTTGGTGTTACTTCTTACAGTGA.............................................................	23	1	2.00	1.00	1.00	0.00	0.00
............................................................................................GTGGTGTTACTTCTTACAGTGA.............................................................	22	1	2.00	0.00	1.00	0.00	1.00
...........................................................................................CTTGGTGTTACTTCTTACAGTG..............................................................	22	1	2.00	0.00	1.00	0.00	1.00
....................................................................................................................................................AAGAGAACAAGGxAAGGAA-----A--	19	1	1.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACCGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00
............................................................................................TTGGTGTTACTTTTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TGGGTGTTACTTCTTACAGTGA.............................................................	22	1	1.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGAT............................................................	23	1	1.00	0.00	0.00	0.00	1.00
...........................................................................................CTTGGTGTTACTTCTTACAGTTA.............................................................	23	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGAGTTACTTCTTACAGTGA.............................................................	22	1	1.00	0.00	0.00	0.00	1.00
.............................................GCTGTAAATTGTAATCATCAA.............................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTGCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
................................................................................................TGTTACTTCTTACAGTGA.............................................................	18	1	1.00	0.00	0.00	0.00	1.00
............................................................................................TTGGAGCTACTTCTTACAGTG..............................................................	21	1	1.00	0.00	1.00	0.00	0.00
.............................................GCTGTAGATTGTAATCATC...............................................................................................................	19	1	1.00	0.00	1.00	0.00	0.00
..................................................................................................................GCGCGGCGCTCGCAACTACCG........................................	21	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGGGTTACTTCTTATAGTG..............................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGC.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
..................................................................................................................GCGCGGCGCTCGAAACTACAG........................................	21	1	1.00	1.00	0.00	0.00	0.00
............................................................................................TTGGTGTTACTTATTACATTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................CGCTGTAAATTGTAATCATC...............................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTATAGTGG.............................................................	22	1	1.00	0.00	0.00	1.00	0.00
.............................................GCTGTAAATTGTAATCCTCACAG...........................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00
.............................................GCTGTAAATTCTAATCATCAA.............................................................................................................	21	1	1.00	0.00	0.00	1.00	0.00
............................................................................................TTGGGGTTACTTCTTCCAGTGA.............................................................	22	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTCTTACAGTGAA............................................................	23	1	1.00	1.00	0.00	0.00	0.00
............................................CGCTGTAAATTGTAATCATCA..............................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................................................TTGGTGTTACTTATTACAGTGT.............................................................	22	1	1.00	0.00	1.00	0.00	0.00

droGri2

CACG---------AA--------C---TTGAATGACGTCACGCCCGCTGTAATATGTAATCATCAAAGCGTG-TATT-----TT--ACTCGCTTGGTGTTACTTCTTACAGTGAGTGCGACGGCCACAC---------------------GTCCAGC--GGAGGAGA-----GTG	Size	Hit Count	Total Norm	V109 Male body
............................................................................................TTGGTGTTACTTCTTACAGTGT.............................................................	22	1	1.00	1.00
............................................................................................TTGGTGTTCCTTCTTACAGTG..............................................................	21	1	1.00	1.00
............................................................................................TTGGGGTTACTTCTTACAGTG..............................................................	21	1	1.00	1.00

Generated: 04/20/2012 at 05:18:44 EDT

dme-mir-971

chrX:12956105-12956200 +

Known_mirbase

intron

20-way Fast Statistical Aligner (FSA) re-alignment

Visually pleasing best hits from LASTZ and MAF

Legend

Re-alignment after removal of non-confident orthologs

20-way Secondary Structure

Small RNA-seq read pileup