dme-mir-309- Best orthologs

dme-mir-309	chr2R:15549211-15549279 -	Known_mirbase
[View on miRBase]	[View on UCSC Genome Browser {Cornell Mirror}]	intergenic

Legend:

   mature strand at position 15549215-15549236
   star strand at position 15549252-15549273
   mutations
   read mismatches

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

Visually pleasing best hits from LASTZ and MAF

Species	Coordinate	Source	Confidence	Alignment
dm3	chr2R:15549196-15549294 -		1	AA--------GT---TTG---GAATAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCA--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC
droSim1	chr2R:14254629-14254727 -	LASTZ	1	AA--------GT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCA--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC
droSec1	super_1:13063923-13064021 -	LASTZ	1	AA--------GT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCA--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC
droYak2	chr2R:13623487-13623590 +	LASTZ	1	AAGC---AAAGT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCTGTTTTGCC----------------AATTTCCT--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC
droEre2	scaffold_4845:9749440-9749538 -	LASTZ	1	GA--------GT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC
droEug1	scf7180000409474:2396603-2396701 +	LASTZ	4	A---------GT---TCG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTGCT--------AGTCAGCACTGGGTAAAGTTTGTCCTATAATCCCGATAA--T--------------ACAACC
droBia1	scf7180000302143:3060087-3060184 -	LASTZ	4	CA--------GC---TCG---GGACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAA--G--------------ACGACC
droTak1	scf7180000415384:83792-83889 +	LASTZ	4	CA--------GT---TCG---GAACAG-TAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAA--G--------------ACGACC
droEle1	scf7180000491201:2014262-2014364 -	LASTZ	4	AG-C---A--AC---TCGAAGGAAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAA--G--------------ACGACC
droRho1	scf7180000780066:73396-73493 +	LASTZ	4	AA--------GC---TCG---GAAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCA----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTTGAAAA--G--------------ACGACC
droFic1	scf7180000454039:848303-848400 -	LASTZ	4	AA--------GC---TCC---GAAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAGAA--G--------------ACGACC
droKik1	scf7180000302679:89661-89756 -	LASTZ	4	-----------T---TCG---GCAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCAAAAC--G--------------ACGACC
droAna3	scaffold_13266:9731105-9731197 +	LASTZ	1	GA---------------------AGA--TCATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTATAAAAAAG--------------CCGTCC
droBip1	scf7180000396427:874084-874176 +	LASTZ	4	GA----------------------AAG-CCATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAATGA--------------ACGTCC
dp4	chr3:12677873-12677971 -	LASTZ	1	AA--------CTATCTCG---G---AA-CTATTATACGATAAACTTTGTTCAGTTTTGCC----------------AACTTGCT--------TG-CAGCACTGGGTGAAGTTTGTCTTATAATCCCACAGT-AA--------------GCGATC
droPer1	super_2:8905688-8905793 +	LASTZ	1	AA-AAACGAACTATCTCG---GA---A-CTATTATACGATAAACTTTGTTCAGTTTTGCC----------------AACTTGCT--------TG-CAGCACTGGGTGAAGTTTGTCTTATAATCCCACAGT-AA--------------GCGATC
droWil1	scaffold_180701:1652063-1652174 -	LASTZ	1	A----------T---TTC---ATATAA-T-ATTATATGATAAACTTTGTTCAGTTTTGCAATCAAAAAATCAAGAAAATTCCTT--------AG-CATCACTGGGTGAAGTTTGTCTTATAATCTTTAAAC--T--------------ACAATC
droVir3	scaffold_12875:4111798-4111897 +	LASTZ	1	TA-------------------TAACAA-ATATTATATGGTAAACTTTGTTCAGTTTTGCC----------------AGGCTCTT-TTTGTG-CG-CATCACTGGGTGAAGTTTGTCGTATAATCGCAAAAA--G--------------AACAGC
droMoj3	scaffold_6496:20937092-20937209 -	LASTZ	1	TA--------TA---CAA---GAACAGAATATTATAAGGTAAACTTTGTTCAGTTTTGCC----------------GGGTTCTATGTTGTG-CG-CATCACTGGGTGAAGTTTGTCGTATAATCGA--AAC--GAAACAGCAAGGAAAAAGTCC
droGri2	scaffold_15112:2109131-2109231 -	LASTZ	4	AA--------AT---ATA---TAATTA-C-ATTATATGGCAAACCTTGTTCAGTTTTGAC----------------AACTTTGTTTCTGTGCAT-CATCACTGGGTGAAGTTTGTCGTATAATC--GAAAT--G----------------GATC

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	AA--------GT---TTG---GAATAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCA--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC
droSim1	AA--------GT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCA--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC
droSec1	AA--------GT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCA--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC
droYak2	AAGC---AAAGT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCTGTTTTGCC----------------AATTTCCT--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC
droEre2	GA--------GT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC
droEug1	A---------GT---TCG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTGCT--------AGTCAGCACTGGGTAAAGTTTGTCCTATAATCCCGATAA--T--------------ACAACC
droBia1	CA--------GC---TCG---GGACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAA--G--------------ACGACC
droTak1	CA--------GT---TCG---GAACAG-TAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAA--G--------------ACGACC
droEle1	AG-C---A--AC---TCGAAGGAAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAA--G--------------ACGACC
droRho1	AA--------GC---TCG---GAAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCA----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTTGAAAA--G--------------ACGACC
droFic1	AA--------GC---TCC---GAAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAGAA--G--------------ACGACC
droKik1	-----------T---TCG---GCAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCAAAAC--G--------------ACGACC
droAna3	GA---------------------AGA--TCATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTATAAAAAAG--------------CCGTCC
droBip1	GA----------------------AAG-CCATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAATGA--------------ACGTCC
dp4	AA--------CTATCTCG---G---AA-CTATTATACGATAAACTTTGTTCAGTTTTGCC----------------AACTTGCT--------TG-CAGCACTGGGTGAAGTTTGTCTTATAATCCCACAGT-AA--------------GCGATC
droPer1	AA-AAACGAACTATCTCG---GA---A-CTATTATACGATAAACTTTGTTCAGTTTTGCC----------------AACTTGCT--------TG-CAGCACTGGGTGAAGTTTGTCTTATAATCCCACAGT-AA--------------GCGATC
droWil1	A----------T---TTC---ATATAA-T-ATTATATGATAAACTTTGTTCAGTTTTGCAATCAAAAAATCAAGAAAATTCCTT--------AG-CATCACTGGGTGAAGTTTGTCTTATAATCTTTAAAC--T--------------ACAATC
droVir3	TA-------------------TAACAA-ATATTATATGGTAAACTTTGTTCAGTTTTGCC----------------AGGCTCTT-TTTGTG-CG-CATCACTGGGTGAAGTTTGTCGTATAATCGCAAAAA--G--------------AACAGC
droMoj3	TA--------TA---CAA---GAACAGAATATTATAAGGTAAACTTTGTTCAGTTTTGCC----------------GGGTTCTATGTTGTG-CG-CATCACTGGGTGAAGTTTGTCGTATAATCGA--AAC--GAAACAGCAAGGAAAAAGTCC
droGri2	AA--------AT---ATA---TAATTA-C-ATTATATGGCAAACCTTGTTCAGTTTTGAC----------------AACTTTGTTTCTGTGCAT-CATCACTGGGTGAAGTTTGTCGTATAATC--GAAAT--G----------------GATC

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

Small RNA-seq read pileup

Species

Alignment

droSim1

AA--------GT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCA--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC	Size	Hit Count	Total Norm	V044 Embryo	M023 Head	M024 Male body	M025 Embryo
.................................................................................................GCACTGGGTAAAGTTTGTCCTA...................................	22	1	979.00	974.00	1.00	0.00	4.00
.................................................................................................GCACTGGGTAAAGTTTGTCCT....................................	21	1	617.00	606.00	0.00	0.00	11.00
....................................CGACAAACCTTGTTCGGTTTTG................................................................................................	22	1	401.00	20.00	1.00	0.00	380.00
.................................................................................................GCACTGGGTAAAGTTTGTCC.....................................	20	1	26.00	26.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAACGTTTGTCCTA...................................	22	1	11.00	11.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTC......................................	19	1	10.00	10.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGCTTGTCCTA...................................	22	1	7.00	7.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTACAGTTTGTCCT....................................	21	1	7.00	7.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTACAGTTTGTCCTA...................................	22	1	7.00	7.00	0.00	0.00	0.00
.................................................................................................GCACTGGGCAAAGTTTGTCCTA...................................	22	1	6.00	6.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTCTCCTA...................................	22	1	6.00	6.00	0.00	0.00	0.00
....................................CGACAAACCTTGTTCGGTTTT.................................................................................................	21	1	5.00	5.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAACGTTTGTCCT....................................	21	1	5.00	5.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTAA..................................	23	1	5.00	5.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTATCCTA...................................	22	1	4.00	4.00	0.00	0.00	0.00
....................................CGACAAACCTTGTTCGGTTTTGT...............................................................................................	23	1	4.00	2.00	0.00	0.00	2.00
.................................................................................................GCACTGGGTCAAGTTTGTCCT....................................	21	1	4.00	4.00	0.00	0.00	0.00
.................................................................................................GCACTGGGCAAAGTTTGTCCT....................................	21	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTACTA...................................	22	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGCTTGTCCT....................................	21	1	3.00	2.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTT...................................	22	1	3.00	3.00	0.00	0.00	0.00
....................................CGACAAACCTTGTTCGGATTTG................................................................................................	22	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................GCACTGGGTAAAGTTTGCCCT....................................	21	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGATTGTCCTA...................................	22	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTCAAGTTTGTCCTA...................................	22	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTAAA.................................	24	1	3.00	3.00	0.00	0.00	0.00
...............................................................................................CAGCACTGGGTAAAGTTTGTCCT....................................	23	1	3.00	1.00	0.00	0.00	2.00
.................................................................................................GCACTGGGTAAAGTTTTTCCTT...................................	22	1	3.00	3.00	0.00	0.00	0.00

droSec1

AA--------GT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCA--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC	Size	Hit Count	Total Norm	V113 Male body	V114 Embryo	V115 Head
.................................................................................................GCACTGGGTAAAGTTTGTCCTA...................................	22	1	7778.00	5.00	7493.00	280.00
.................................................................................................GCACTGGGTAAAGTTTGTCCT....................................	21	1	2479.00	2.00	2371.00	106.00
.................................................................................................GCACTGGGTAAAGTTTGTCC.....................................	20	1	146.00	0.00	143.00	3.00
....................................CGACAAACCTTGTTCGGTTTTG................................................................................................	22	1	104.00	0.00	103.00	1.00
.................................................................................................GCACTGGGTAAAGTTTGTC......................................	19	1	51.00	1.00	49.00	1.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTAA..................................	23	1	33.00	0.00	32.00	1.00
.................................................................................................GTACTGGGTAAAGTTTGTCCTA...................................	22	1	29.00	0.00	28.00	1.00
.................................................................................................GCATTGGGTAAAGTTTGTCCTA...................................	22	1	27.00	0.00	27.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTAT..................................	23	1	24.00	0.00	24.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGCCCTA...................................	22	1	16.00	0.00	15.00	1.00
.................................................................................................GCACTGGGTAAAGTTTCTCCTA...................................	22	1	15.00	0.00	15.00	0.00
................................................................................................AGCACTGGGTAAAGTTTGTCCT....................................	22	1	12.00	0.00	12.00	0.00
.................................................................................................GCGCTGGGTAAAGTTTGTCCTA...................................	22	1	12.00	0.00	11.00	1.00
...................................................................................................ACTGGGTAAAGTTTGTCCTA...................................	20	1	11.00	0.00	11.00	0.00
.................................................................................................GCACTGGGCAAAGTTTGTCCTA...................................	22	1	11.00	0.00	11.00	0.00
.................................................................................................GCACTGGGTAAAGCTTGTCCTA...................................	22	1	10.00	0.00	10.00	0.00
.................................................................................................GCACTGGGTAAGGTTTGTCCTA...................................	22	1	10.00	0.00	9.00	1.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTAC..................................	23	1	10.00	0.00	10.00	0.00
.................................................................................................GCACTGGGTAAAGTTCGTCCTA...................................	22	1	10.00	0.00	8.00	2.00
.................................................................................................GCACTGGGTAAAGTTTGTCTTA...................................	22	1	9.00	0.00	9.00	0.00
.................................................................................................GCATTGGGTAAAGTTTGTCCT....................................	21	1	9.00	0.00	9.00	0.00
.................................................................................................GCACTGGGTAAAGTCTGTCCTA...................................	22	1	9.00	0.00	9.00	0.00
.................................................................................................GCACTxGGTAAAGTTTGTCCTA...................................	21	1	8.00	0.00	8.00	0.00
....................................CGACAAACCTTGTTCGGTTTT.................................................................................................	21	1	8.00	0.00	8.00	0.00
.................................................................................................GCACCGGGTAAAGTTTGTCCTA...................................	22	1	8.00	0.00	8.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTACTA...................................	22	1	7.00	1.00	5.00	1.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTG...................................	22	1	7.00	0.00	7.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTAAA.................................	24	1	7.00	0.00	7.00	0.00
.................................................................................................GCACTGGGTAAAGxTTGTCCTA...................................	21	1	7.00	0.00	7.00	0.00
.................................................................................................GCACTGGCTAAAGTTTGTCCTA...................................	22	1	7.00	0.00	7.00	0.00
.................................................................................................GCACTGGGTAAAGTTTATCCTA...................................	22	1	7.00	0.00	7.00	0.00
.................................................................................................CCACTGGGTAAAGTTTGTCCTA...................................	22	1	7.00	0.00	6.00	1.00
.................................................................................................GCCCTGGGTAAAGTTTGTCCTA...................................	22	1	6.00	0.00	6.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTTCTA...................................	22	1	6.00	0.00	6.00	0.00
.................................................................................................GCACTGGGTAGAGTTTGTCCTA...................................	22	1	6.00	0.00	6.00	0.00
.................................................................................................GTACTGGGTAAAGTTTGTCCT....................................	21	1	5.00	0.00	5.00	0.00
.................................................................................................GCACTGGGTAAAGTTTTTCCTA...................................	22	1	5.00	0.00	5.00	0.00
.................................................................................................GCACTGGGTAAAGxTTGTCCT....................................	20	1	5.00	0.00	5.00	0.00
.................................................................................................GCACTGGGTACAGTTTGTCCTA...................................	22	1	5.00	0.00	5.00	0.00
.................................................................................................TCACTGGGTAAAGTTTGTCCT....................................	21	1	5.00	0.00	5.00	0.00
.................................................................................................GCACTGGGTAACGTTTGTCCTA...................................	22	1	5.00	0.00	5.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCCTA...................................	22	1	5.00	0.00	5.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCCT....................................	21	1	5.00	0.00	5.00	0.00
.................................................................................................GCACTGGGTAAAGTATGTCCTA...................................	22	1	5.00	0.00	5.00	0.00
.................................................................................................GCGCTGGGTAAAGTTTGTCCT....................................	21	1	5.00	0.00	5.00	0.00
.................................................................................................GCACTGGGTxAAGTTTGTCCTA...................................	21	1	5.00	0.00	5.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCC....................................	21	1	4.00	0.00	4.00	0.00
.................................................................................................GCACTGGGTAAAGTTAGTCCTA...................................	22	1	4.00	0.00	4.00	0.00
.................................................................................................GCTCTGGGTAAAGTTTGTCCTA...................................	22	1	4.00	0.00	4.00	0.00
.................................................................................................GCAATGGGTAAAGTTTGTCCTA...................................	22	1	4.00	0.00	4.00	0.00
.................................................................................................GCACTGGGCAAAGTTTGTCCT....................................	21	1	4.00	0.00	4.00	0.00
................................................................................................CGCACTGGGTAAAGTTTGTCCTA...................................	23	1	4.00	0.00	4.00	0.00
.................................................................................................GCACTxGGTAAAGTTTGTCCT....................................	20	1	4.00	0.00	4.00	0.00
.................................................................................................GCACTGGGTAATGTTTGTCCTA...................................	22	1	4.00	0.00	3.00	1.00
.................................................................................................GCACTGGGTAAAGTTCGTCCT....................................	21	1	4.00	0.00	4.00	0.00
.................................................................................................GCACTGGGTAAATTTTGTCCTA...................................	22	1	3.00	0.00	3.00	0.00
.................................................................................................GCACTxxGTAAAGTTTGTCCTA...................................	20	1	3.00	0.00	2.00	1.00
.................................................................................................GCACTGGGGAAAGTTTGTCCTA...................................	22	1	3.00	0.00	3.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCCA...................................	22	1	3.00	0.00	3.00	0.00
.................................................................................................TCACTGGGTAAAGTTTGTCCTA...................................	22	1	3.00	0.00	3.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTT...................................	22	1	3.00	0.00	3.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTC...................................	22	1	3.00	0.00	3.00	0.00
...................................................................................................ACTGGGTAAAGTTTGTCCT....................................	19	1	3.00	0.00	3.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGCCCT....................................	21	1	3.00	0.00	3.00	0.00
.................................................................................................GCACTGGGTAAAGTTGGTCCTA...................................	22	1	3.00	0.00	3.00	0.00
...............................................................................................CAGCACTGGGTAAAGTTTGTCCT....................................	23	1	3.00	0.00	3.00	0.00
.................................................................................................ACACTGGGTAAAGTTTGTCCTA...................................	22	1	3.00	0.00	3.00	0.00
................................................................................................AGCACTGGGTAAAGTTTGTCC.....................................	21	1	3.00	0.00	3.00	0.00
.................................................................................................GCACTGGGTAAAGTTTATCCT....................................	21	1	3.00	0.00	3.00	0.00
.................................................................................................GCACTGGGTAAAGATTGTCCTA...................................	22	1	3.00	0.00	3.00	0.00
..................................................................................................CACTGGGTAAAGTTTGTCCT....................................	20	1	3.00	0.00	3.00	0.00
.................................................................................................GCACTGGATAAAGTTTGTCCTA...................................	22	1	3.00	0.00	3.00	0.00
.................................................................................................GCACTGGGTAAACTTTGTCCT....................................	21	1	3.00	0.00	2.00	1.00

droYak2

AAGC---AAAGT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCTGTTTTGCC----------------AATTTCCT--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
.................................................................................................GCACTGGGTAAAGTTTGTCCTA...................................	22	1	419.00	418.00	0.00	0.00	1.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCT....................................	21	1	182.00	180.00	0.00	0.00	2.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCC.....................................	20	1	7.00	7.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTAA..................................	23	1	5.00	5.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGGAAAGTTTGTCCTA...................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAGAGTTTGTCCTA...................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTC......................................	19	1	3.00	3.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAACGTTTGTCCTA...................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTACTA...................................	22	1	2.00	2.00	0.00	0.00	0.00	0.00
.................................................................................................GCCCTGGGTAAAGTTTGTCCTA...................................	22	1	2.00	2.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGCAAAGTTTGTCCTA...................................	22	1	2.00	2.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTACAGTTTGTCCTA...................................	22	1	2.00	2.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAGGTTTGTCCTA...................................	22	1	2.00	2.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAATTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGCCAAGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTACAGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................CCACTGGGTAAAGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCGCTGGGTAAAGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
...................................................................................................ACTGGGTAAAGTTTGTCCTA...................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GGACTGGGTAAAGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTTAAGCTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
................................................................................................CGCACTGGGTAAAGTTTGTCCT....................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
................................................................................................AGCACTGGGTAAAGTTTGTCCT....................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCAATGGGTAAAGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGCGTATAGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGTGTAAAGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GGACTGGGTAAAGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................CCACTGGGTAAAGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTC...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGAGTAAAGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGGTCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCC....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................ACACTGGGTAAAGTTTGTTCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTAT..................................	23	1	1.00	0.00	0.00	1.00	0.00	0.00
.................................................................................................GCACGGGGTTAAGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCCCTGGGTAACGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTCTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGATTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTCTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGATTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTxAAGTTTGTCCTA...................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTACAGTTTGTCA.....................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCTTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
....................................CGACAAACCTTGTTCTGTTTT.................................................................................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
....................................CGACAAACCTTGTTCTGT....................................................................................................	18	1	1.00	1.00	0.00	0.00	0.00	0.00
................................................................................................CGCACTGGGTAAAGTTTGTCCTA...................................	23	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGGTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAGGTTTGTCCT....................................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGGAATGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTT...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GAACTGGGTCAAGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GGACTGGGGAAAGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTCAAGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GAACTGAGTAAAGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGAAAAGATTGTC......................................	19	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTTTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACCGGGTAAAGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGCTAAAGTTTGTCCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTGCTA...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTG...................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................GCACTGTGTAAAGTTTGTCCT....................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00

droEre2

GA--------GT---TTG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AGCCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAAC--G--------------ACGACC	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
.................................................................................................GCACTGGGTAAAGTTTGTCCTA...................................	22	1	385.00	384.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAAGTTTGTCCT....................................	21	1	187.00	187.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTTTCCTA...................................	22	1	16.00	16.00	0.00	0.00	0.00
....................................CGACAAACCTTGTTCGGTTTTG................................................................................................	22	1	7.00	7.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCC.....................................	20	1	6.00	6.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTTTCCT....................................	21	1	5.00	5.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGGTTGTCCTA...................................	22	1	4.00	4.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTC...................................	22	1	4.00	4.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTC......................................	19	1	4.00	4.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCCTA...................................	22	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTTGGTAAAGTTTGTCCTA...................................	22	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGATTTTCCTA...................................	22	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTA...................................	22	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAATTTTGTCCT....................................	21	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTT....................................	21	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAGGTTTGTCCTA...................................	22	1	3.00	2.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAACGTTTGTCCTA...................................	22	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTCAAGTTTGTCCT....................................	21	1	3.00	3.00	0.00	0.00	0.00

droEug1

A---------GT---TCG---GAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTGCT--------AGTCAGCACTGGGTAAAGTTTGTCCTATAATCCCGATAA--T--------------ACAACC

Size

Hit Count

Total Norm

droBia1

CA--------GC---TCG---GGACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAA--G--------------ACGACC

Size

Hit Count

Total Norm

droTak1

CA--------GT---TCG---GAACAG-TAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAA--G--------------ACGACC

Size

Hit Count

Total Norm

droEle1

AG-C---A--AC---TCGAAGGAAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAA--G--------------ACGACC

Size

Hit Count

Total Norm

droRho1

AA--------GC---TCG---GAAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCA----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTTGAAAA--G--------------ACGACC

Size

Hit Count

Total Norm

droFic1

AA--------GC---TCC---GAAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAGAA--G--------------ACGACC

Size

Hit Count

Total Norm

droKik1

-----------T---TCG---GCAAAG-CAATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCAAAAC--G--------------ACGACC

Size

Hit Count

Total Norm

droAna3

GA---------------------AGA--TCATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTATAAAAAAG--------------CCGTCC	Size	Hit Count	Total Norm	V105 Male body	V106 Head	V055 Unknown	V039 Embryo
.................................................................................................GCACTGGGTAAAGTTTGTCCTA...................................	22	1	91.00	2.00	5.00	10.00	74.00
.................................................................................................GCACTGGGTAAAGTTTGTCCT....................................	21	1	56.00	1.00	2.00	5.00	48.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTA...................................	22	1	10.00	0.00	0.00	0.00	10.00
.................................................................................................GCACTGGGTAAAGTTTTTCCT....................................	21	1	2.00	0.00	0.00	0.00	2.00
.................................................................................................GCACTGGGTAAAGTTTGTCC.....................................	20	1	2.00	0.00	0.00	0.00	2.00
.................................................................................................GCACTGCGTAAAGTTTGTCCTA...................................	22	1	2.00	0.00	0.00	0.00	2.00
.................................................................................................GCACTGGGGAAAGTTTGTCCT....................................	21	1	2.00	1.00	0.00	0.00	1.00
................................................................................................AGCACTGGGTAAAGTTTGTCCT....................................	22	1	2.00	0.00	0.00	1.00	1.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTAT..................................	23	1	2.00	0.00	0.00	0.00	2.00
.................................................................................................GCACTGGGTAAAGTTTGTACTA...................................	22	1	2.00	0.00	0.00	1.00	1.00
....................................CGACAAACCTTCTTCGGTTTTG................................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAAGTTTATCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGGAAAGTTTCTCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAAGTTTGTTCT....................................	21	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGATAAAGTTTGTCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGCGTAAAGTTTGTCCT....................................	21	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAAGTTTCTCCTA...................................	22	1	1.00	0.00	0.00	1.00	0.00
....................................CGACAAACCTTGTTCGGTTTTT................................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGTGTAAAGTTTCTCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAAGCTTGTCCT....................................	21	1	1.00	0.00	0.00	0.00	1.00
.......................................CAAACCTTGTTCGGTTTTGC...............................................................................................	20	1	1.00	0.00	0.00	1.00	0.00
.................................................................................................GCACTGGGTCAAGTTTGTCCTG...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGAAAAGTTTGTCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
................................................................................................AGCACTGGGTAAAGTTTGTCC.....................................	21	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAACGGTTGTCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................ACACTGGGTAAAGTTTGTCTTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................CCACTGGGTAAAGTTTATCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GAACTGGGTAAAGTTTGTCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
....................................CGACAAACCTTGTTCGGTTTT.................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAATGTTTGTCCT....................................	21	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTT...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAAGATTGTCCT....................................	21	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGCTAAAGTTTGTCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTCGGTAAAGTTTGTCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAGGTTTGTCCTAA..................................	23	1	1.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGTCAAAGTTTGTCCT....................................	21	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAAGTTTGTCAT....................................	21	1	1.00	0.00	1.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTCTGTCCTA...................................	22	1	1.00	0.00	1.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTTTCCTC...................................	22	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................CCACTGGGTAAAGCTTGTCCT....................................	21	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTAAATTTTGTCCT....................................	21	1	1.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGCAAAGTTTGTCCT....................................	21	1	1.00	0.00	0.00	1.00	0.00
.................................................................................................GCACTGGGTAAAGTTTTTCCTA...................................	22	1	1.00	0.00	0.00	0.00	1.00
....................................CGACAAACCTTGTTCGGTTTTG................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00

droBip1

GA----------------------AAG-CCATTATACGACAAACCTTGTTCGGTTTTGCC----------------AATTTCCT--------AG-CAGCACTGGGTAAAGTTTGTCCTATAATCTCGAAAATGA--------------ACGTCC

Size

Hit Count

Total Norm

dp4

AA--------CTATCTCG---G---AA-CTATTATACGATAAACTTTGTTCAGTTTTGCC----------------AACTTGCT--------TG-CAGCACTGGGTGAAGTTTGTCTTATAATCCCACAGT-AA--------------GCGATC	Size	Hit Count	Total Norm	V112 Male body	V043 Embryo	V051 Head	M022 Male body
.................................................................................................GCACTGGGTGAAGTTTGTCTTA...................................	22	1	1132.00	0.00	1132.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTT....................................	21	1	160.00	1.00	159.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTAA..................................	23	1	100.00	2.00	98.00	0.00	0.00
.................................................................................................GCACTGGGTGCAGTTTGTCTTA...................................	22	1	18.00	0.00	18.00	0.00	0.00
.................................................................................................GCACTGGGTGGAGTTTGTCTTA...................................	22	1	12.00	0.00	12.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTT...................................	22	1	9.00	0.00	9.00	0.00	0.00
................................................................................................AGCACTGGGTGAAGTTTGTCTT....................................	22	1	8.00	0.00	8.00	0.00	0.00
.................................................................................................GCACTGGGCGAAGTTTGTCTTA...................................	22	1	7.00	0.00	7.00	0.00	0.00
................................................................................................AGCACTGGGTGAAGTTTGTCTTA...................................	23	1	7.00	0.00	7.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTAC..................................	23	1	6.00	0.00	6.00	0.00	0.00
.................................................................................................GCACTGGGTGTAGTTTGTCTTA...................................	22	1	5.00	0.00	5.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTG...................................	22	1	5.00	0.00	5.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGATTGTCTTA...................................	22	1	5.00	0.00	5.00	0.00	0.00
.................................................................................................GAACTGGGTGAAGTTTGTCTTA...................................	22	1	5.00	0.00	5.00	0.00	0.00
.................................................................................................GCACTGGGAGAAGTTTGTCTTA...................................	22	1	5.00	0.00	5.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTAT..................................	23	1	5.00	0.00	5.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTAAA.................................	24	1	5.00	0.00	5.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGCCTTA...................................	22	1	4.00	0.00	4.00	0.00	0.00
.................................................................................................GCACTGGGTGACGTTTGTCTTA...................................	22	1	4.00	0.00	4.00	0.00	0.00
....................................CGATAAACTTTGTTCAGTTTTG................................................................................................	22	1	4.00	0.00	4.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGCTTGTCTTA...................................	22	1	4.00	0.00	4.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCT.....................................	20	1	4.00	0.00	4.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGGCTTA...................................	22	1	4.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTA...................................	22	1	4.00	0.00	4.00	0.00	0.00
.................................................................................................GCACTGGGTGAGGTTTGTCTTA...................................	22	1	3.00	0.00	3.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTCTGTCTTA...................................	22	1	3.00	0.00	3.00	0.00	0.00
.................................................................................................GCAATGGGTGAAGTTTGTCTTA...................................	22	1	3.00	0.00	3.00	0.00	0.00
.................................................................................................GCACCGGGTGAAGTTTGTCTTA...................................	22	1	3.00	0.00	3.00	0.00	0.00
.................................................................................................GCATTGGGTGAAGTTTGTCTTA...................................	22	1	3.00	0.00	3.00	0.00	0.00
.................................................................................................GCACTGGATGAAGTTTGTCTTA...................................	22	1	3.00	0.00	3.00	0.00	0.00
................................................................................................AGCACTGGGTGAAGTTTGTCT.....................................	21	1	3.00	0.00	3.00	0.00	0.00
.................................................................................................GCACTGGGGGAAGTTTGTCTTA...................................	22	1	3.00	0.00	3.00	0.00	0.00

droPer1

AA-AAACGAACTATCTCG---GA---A-CTATTATACGATAAACTTTGTTCAGTTTTGCC----------------AACTTGCT--------TG-CAGCACTGGGTGAAGTTTGTCTTATAATCCCACAGT-AA--------------GCGATC	Size	Hit Count	Total Norm	V111 Male body	V042 Embryo	V050 Head	V057 Head	M021 Embryo
.................................................................................................GCACTGGGTGAAGTTTGTCTTA...................................	22	1	197.00	1.00	171.00	0.00	10.00	15.00
.................................................................................................GCACTGGGTGAAGTTTGTCTT....................................	21	1	47.00	1.00	38.00	0.00	2.00	6.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTAA..................................	23	1	21.00	1.00	18.00	0.00	2.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTA...................................	22	1	17.00	11.00	6.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCT....................................	21	1	6.00	4.00	2.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCT.....................................	20	1	5.00	0.00	2.00	0.00	2.00	1.00
................................................................................................AGCACTGGGTGAAGTTTGTCTT....................................	22	1	4.00	0.00	3.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTGCAGTTTGTCTTA...................................	22	1	3.00	0.00	3.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTATTA...................................	22	1	2.00	0.00	1.00	0.00	1.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTT...................................	22	1	2.00	0.00	2.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTAT..................................	23	1	2.00	0.00	1.00	0.00	1.00	0.00
.................................................................................................GCACTGGGTGAAGCTTGTCTTA...................................	22	1	2.00	0.00	1.00	0.00	1.00	0.00
....................................CGATAAACTTTGTTCAGTTTTG................................................................................................	22	1	2.00	0.00	2.00	0.00	0.00	0.00
.................................................................................................GCAATGGGTGAAGTTTGTCTTA...................................	22	1	2.00	0.00	2.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTAAA.................................	24	1	2.00	0.00	2.00	0.00	0.00	0.00
.................................................................................................GCACTAGGTGAAGTTTGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
................................................................................................AGCACTGGGTGAATTTTGTCTT....................................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
.................................................................................................GCACTGGGTGAAGTTTGTCTA....................................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTAGGTGAAGTTTGTCTTAA..................................	23	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGTAGTTTGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGAGAAGTTTGTCTTA...................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTAA..................................	23	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGCGAAGTTTGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGTGGTTTGTCTT....................................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTTT..................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
................................................................................................AGCACTGGGTGAAGTTTGTCT.....................................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCC.....................................	20	1	1.00	0.00	0.00	0.00	0.00	1.00
...................................................................................................ACTGGGTGAAGTTTGTCTTA...................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTC...................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
.................................................................................................GCACTGGGTGAAGTTCGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCCTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................ACACTGGGTGAAGTTTGTCTT....................................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
....................................CGATAAACTTTGTTCAGTTTT.................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
.................................................................................................GAACTGGGTGAAGTTTGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAGGTTTGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGCAGCTTGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGAGTGAAGTTTGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGATTGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTG...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGGTTGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGGCGTTTGTCTTA...................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGGCTTA...................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
.................................................................................................GCAATGGGTGCAGTTTGTCTTA...................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTC......................................	19	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTAAAGTTTGTCCTAT..................................	23	1	1.00	0.00	1.00	0.00	0.00	0.00
.................................................................................................GCACTGGGTGATGTTTGGCT.....................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00

droWil1

A----------T---TTC---ATATAA-T-ATTATATGATAAACTTTGTTCAGTTTTGCAATCAAAAAATCAAGAAAATTCCTT--------AG-CATCACTGGGTGAAGTTTGTCTTATAATCTTTAAAC--T--------------ACAATC	Size	Hit Count	Total Norm	V117 Male body	V118 Embryo	V119 Head	M020 Head
.................................................................................................TCACTGGGTGAAGTTTGTCTTA...................................	22	2	6375.50	0.00	6367.50	7.50	0.50
.................................................................................................TCACTGGGTGAAGTTTGTCTTAA..................................	23	2	1737.50	0.00	1735.00	2.50	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTT....................................	21	2	582.50	0.00	582.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTAAA.................................	24	2	225.00	0.00	224.50	0.50	0.00
...................................................................................................ACTGGGTGAAGTTTGTCTTA...................................	20	2	45.50	0.00	45.50	0.00	0.00
.................................................................................................TCACTGGGCGAAGTTTGTCTTA...................................	22	2	37.50	0.00	37.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTAT..................................	23	2	35.50	0.00	35.50	0.00	0.00
................................................................................CCTT--------AG-CATCACTGGGTGAAG............................................	21	2	23.50	0.00	23.50	0.00	0.00
.................................................................................................TCACTTGGTGAAGTTTGTCTTA...................................	22	2	21.00	0.00	21.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTAAAA................................	25	2	19.00	0.00	19.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTT...................................	22	2	17.50	0.00	17.50	0.00	0.00
.................................................................................................TCACTGTGTGAAGTTTGTCTTA...................................	22	2	13.50	0.00	13.50	0.00	0.00
...................................................................................................ACTGGGTGAAGTTTGTCTTAA..................................	21	2	13.00	0.00	13.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGCCTTA...................................	22	2	11.50	0.00	11.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTAC..................................	23	2	11.50	0.00	11.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTTTCTTA...................................	22	2	11.00	0.00	11.00	0.00	0.00
.................................................................................................TAACTGGGTGAAGTTTGTCTTA...................................	22	2	10.50	0.00	10.50	0.00	0.00
.................................................................................................TCACTGGGTTAAGTTTGTCTTA...................................	22	2	10.50	0.00	10.50	0.00	0.00
...................................................................................T--------AG-CATCACTGGGTGAAGTTTG........................................	22	2	10.00	0.00	10.00	0.00	0.00
................................................................................CCTT--------AG-CATCACTGGGTGAAGT...........................................	22	2	9.00	0.00	9.00	0.00	0.00
.................................................................................................TCACTGGGGGAAGTTTGTCTTA...................................	22	2	9.00	0.00	9.00	0.00	0.00
.................................................................................................TCACTGGGCGAAGTTTGTCTTAA..................................	23	2	8.50	0.00	8.50	0.00	0.00
..................................................................................................CACTGGGTGAAGTTTGTCTTA...................................	21	2	7.50	0.00	7.50	0.00	0.00
.................................................................................................TCGCTGGGTGAAGTTTGTCTTA...................................	22	2	7.00	0.00	7.00	0.00	0.00
.................................................................................................TCACTxGGTGAAGTTTGTCTTA...................................	21	2	7.00	0.00	7.00	0.00	0.00
....................................TGATAAACTTTGTTCAGTTTT.................................................................................................	21	2	7.00	0.00	7.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTCTGTCTTA...................................	22	2	7.00	0.00	7.00	0.00	0.00
.................................................................................................TCACTGGGTGGAGTTTGTCTTA...................................	22	2	7.00	0.00	7.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGCTTGTCTTA...................................	22	2	7.00	0.00	7.00	0.00	0.00
.................................................................................................TCACCGGGTGAAGTTTGTCTTA...................................	22	2	6.50	0.00	6.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGxTTGTCTTA...................................	21	2	6.50	0.00	6.50	0.00	0.00
.................................................................................................TCACTAGGTGAAGTTTGTCTTA...................................	22	2	6.50	0.00	6.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTATTA...................................	22	2	6.50	0.00	6.50	0.00	0.00
........................................AAACTTTGTTCAGTTTTGCAA.............................................................................................	21	2	6.50	0.00	6.50	0.00	0.00
.................................................................................................TCACTGGGAGAAGTTTGTCTTA...................................	22	2	6.50	0.00	6.50	0.00	0.00
.................................................................................................TCACTGGGTGAGGTTTGTCTTA...................................	22	2	6.00	0.00	6.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTG...................................	22	2	6.00	0.00	6.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTAG..................................	23	2	6.00	0.00	6.00	0.00	0.00
.................................................................................................TCACTGGGCGAAGTTTGTCTT....................................	21	2	6.00	0.00	6.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCCTA...................................	22	2	6.00	0.00	6.00	0.00	0.00
.................................................................................................TCAATGGGTGAAGTTTGTCTTA...................................	22	2	6.00	0.00	6.00	0.00	0.00
.................................................................................................TCACTGGGTGAATTTTGTCTTA...................................	22	2	6.00	0.00	6.00	0.00	0.00
................................................................................................CTCACTGGGTGAAGTTTGTCTTA...................................	23	2	5.50	0.00	5.50	0.00	0.00
...................................................................................T--------AG-CATCACTGGGTGAAGTTTGC.......................................	23	2	5.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTAAT.................................	24	2	5.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTGTGTGAAGTTTGTCTTAA..................................	23	2	5.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTAAAAA...............................	26	2	5.00	0.00	5.00	0.00	0.00
.................................................................................................CCACTGGGTGAAGTTTGTCTTA...................................	22	2	5.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTTGGTGAAGTTTGTCTTAA..................................	23	2	4.50	0.00	4.50	0.00	0.00
.................................................................................................TCACTGGATGAAGTTTGTCTTA...................................	22	2	4.50	0.00	4.50	0.00	0.00
.................................................................................................TCACTGGCTGAAGTTTGTCTTA...................................	22	2	4.50	0.00	4.50	0.00	0.00
.................................................................................................TCACTGGGTGCAGTTTGTCTTA...................................	22	2	4.50	0.00	4.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTCTCTTA...................................	22	2	4.50	0.00	4.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGCTTGTCTTAA..................................	23	2	4.50	0.00	4.50	0.00	0.00
.................................................................................................TAACTGGGTGAAGTTTGTCTTAA..................................	23	2	4.50	0.00	4.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTCGTCTTA...................................	22	2	4.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTCA...................................	22	2	4.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTTAAGTTTGTCTTAA..................................	23	2	4.00	0.00	4.00	0.00	0.00
........................................AAACTTTGTTCAGTTTTGCAAT............................................................................................	22	2	4.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTTGGTGAAGTTTGTCTT....................................	21	2	4.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGTTGAAGTTTGTCTTA...................................	22	2	4.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCT.....................................	20	2	4.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTAAAGTTTGTCTTA...................................	22	2	4.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTGAACTTTGTCTTA...................................	22	2	4.00	0.00	4.00	0.00	0.00
...................................................................................T--------AG-CATCACTGGGTGAAGTTTGT.......................................	23	2	4.00	0.00	4.00	0.00	0.00
.................................................................................................TCCCTGGGTGAAGTTTGTCTTA...................................	22	2	4.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTAA...................................	22	2	3.50	0.00	3.50	0.00	0.00
.................................................................................................TCACTGGGTGACGTTTGTCTTA...................................	22	2	3.50	0.00	3.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTA....................................	21	2	3.50	0.00	3.50	0.00	0.00
..................................................................................TT--------AG-CATCACTGGGTGAAGTTTG........................................	23	2	3.50	0.00	3.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCCTAA..................................	23	2	3.50	0.00	3.50	0.00	0.00
.......................................TAAACTTTGTTCAGTTTTGCAA.............................................................................................	22	2	3.50	0.00	3.50	0.00	0.00
.................................................................................................TCACTGGGTCAAGTTTGTCTTA...................................	22	2	3.50	0.00	3.50	0.00	0.00
...................................................................................................ACTGGGTGAAGTTTGTCTT....................................	19	2	3.50	0.00	3.50	0.00	0.00
.................................................................................................TCACTGAGTGAAGTTTGTCTTA...................................	22	2	3.50	0.00	3.50	0.00	0.00
.................................................................................................TCACTCGGTGAAGTTTGTCTTA...................................	22	2	3.00	0.00	3.00	0.00	0.00
.................................................................................................TCACTGGGTGGAGTTTGTCTTAA..................................	23	2	3.00	0.00	3.00	0.00	0.00
..................................................................................................CACTGGGTGAAGTTTGTCTTAA..................................	22	2	3.00	0.00	3.00	0.00	0.00
.................................................................................................TTACTGGGTGAAGTTTGTCTTA...................................	22	2	3.00	0.00	3.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTATA.................................	24	2	2.50	0.00	2.50	0.00	0.00
.................................................................................................TCACTGGGTGAGGTTTGTCTTAA..................................	23	2	2.50	0.00	2.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTTTCTTAA..................................	23	2	2.50	0.00	2.50	0.00	0.00
....................................TGATAAACTTTGTTCAGTTTTG................................................................................................	22	2	2.50	0.00	2.50	0.00	0.00
.................................................................................................TAACTGGGTGAAGTTTGTCTT....................................	21	2	2.50	0.00	2.50	0.00	0.00
.................................................................................................TCATTGGGTGAAGTTTGTCTTA...................................	22	2	2.50	0.00	2.50	0.00	0.00
................................................................................................CTCACTGGGTGAAGTTTGTCTTAA..................................	24	2	2.50	0.00	2.50	0.00	0.00
.................................................................................................TCCCTGGGTGAAGTTTGTCTTAA..................................	23	2	2.50	0.00	2.50	0.00	0.00
................................................................................................ATCACTGGGTGAAGTTTGTCT.....................................	21	2	2.50	0.00	2.50	0.00	0.00
.................................................................................................TCACTGGTTGAAGTTTGTCTTAA..................................	23	2	2.50	0.00	2.50	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTATTAA..................................	23	2	2.00	0.00	2.00	0.00	0.00
.................................................................................................CCACTGGGTGAAGTTTGTCTTAA..................................	23	2	2.00	0.00	2.00	0.00	0.00
.................................................................................................TCACTAGGTGAAGTTTGTCTTAA..................................	23	2	2.00	0.00	2.00	0.00	0.00
.................................................................................................TCGCTGGGTGAAGTTTGTCTTAA..................................	23	2	2.00	0.00	2.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTCGTCTTAA..................................	23	2	2.00	0.00	2.00	0.00	0.00
.................................................................................................TCACTGGGTGAACTTTGTCTTAA..................................	23	2	2.00	0.00	2.00	0.00	0.00
..................................................................................TT--------AG-CATCACTGGGTGAAGTTTGT.......................................	24	2	2.00	0.00	2.00	0.00	0.00
..................................................................................TT--------AG-CATCACTGGGTGAAGTT..........................................	21	2	2.00	0.00	2.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTAAG.................................	24	2	2.00	0.00	2.00	0.00	0.00
.................................................................................................TCTCTGGGTGAAGTTTGTCTTA...................................	22	2	2.00	0.00	2.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTGTTA...................................	22	2	2.00	0.00	2.00	0.00	0.00
....................................................................................................CTGGGTGAAGTTTGTCTTAA..................................	20	2	1.50	0.00	1.50	0.00	0.00

droVir3

TA-------------------TAACAA-ATATTATATGGTAAACTTTGTTCAGTTTTGCC----------------AGGCTCTT-TTTGTG-CG-CATCACTGGGTGAAGTTTGTCGTATAATCGCAAAAA--G--------------AACAGC	Size	Hit Count	Total Norm	V116 Male body	V053 Unknown	V047 Embryo	M027 Male body	M028 Head
.................................................................................................TCACTGGGTGAAGTTTGTCGTA...................................	22	1	2951.00	3.00	1.00	2947.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTAA..................................	23	1	297.00	0.00	0.00	295.00	2.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCGT....................................	21	1	235.00	3.00	1.00	231.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTA...................................	22	1	38.00	0.00	0.00	38.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTC...................................	22	1	32.00	0.00	0.00	31.00	1.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTAAA.................................	24	1	26.00	1.00	1.00	24.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTAT..................................	23	1	24.00	0.00	0.00	24.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTTTCGTA...................................	22	1	20.00	0.00	0.00	20.00	0.00	0.00
...................................................................................................ACTGGGTGAAGTTTGTCGTA...................................	20	1	20.00	0.00	0.00	20.00	0.00	0.00
.................................................................................................TCACTGGGTGCAGTTTGTCGTA...................................	22	1	18.00	0.00	0.00	18.00	0.00	0.00
.................................................................................................TCACTGGGCGAAGTTTGTCGTA...................................	22	1	17.00	0.00	0.00	17.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGGTTGTCGTA...................................	22	1	13.00	0.00	0.00	13.00	0.00	0.00
.................................................................................................TCACTGGGGGAAGTTTGTCGTA...................................	22	1	13.00	0.00	0.00	13.00	0.00	0.00
.................................................................................................TCACTGGGTGACGTTTGTCGTA...................................	22	1	12.00	0.00	0.00	12.00	0.00	0.00
.................................................................................................TCACTGGGTGAGGTTTGTCGTA...................................	22	1	12.00	0.00	0.00	12.00	0.00	0.00
.................................................................................................TCACTGGGTTAAGTTTGTCGTA...................................	22	1	11.00	0.00	0.00	11.00	0.00	0.00
.................................................................................................TCACTAGGTGAAGTTTGTCGTA...................................	22	1	10.00	0.00	0.00	10.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGGCGTA...................................	22	1	10.00	0.00	0.00	10.00	0.00	0.00
.................................................................................................TCACTGTGTGAAGTTTGTCGTA...................................	22	1	10.00	0.00	0.00	10.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGCTTGTCGTA...................................	22	1	9.00	0.00	0.00	9.00	0.00	0.00
.................................................................................................TCACTGGGTGAATTTTGTCGTA...................................	22	1	9.00	0.00	0.00	9.00	0.00	0.00
.................................................................................................TCACTTGGTGAAGTTTGTCGTA...................................	22	1	8.00	0.00	0.00	8.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCGGA...................................	22	1	8.00	0.00	0.00	8.00	0.00	0.00
.................................................................................................TCACTGGTTGAAGTTTGTCGTA...................................	22	1	7.00	0.00	0.00	7.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTTTCTTA...................................	22	1	7.00	0.00	0.00	7.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCCTA...................................	22	1	7.00	0.00	0.00	7.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTG...................................	22	1	7.00	0.00	0.00	7.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCG.....................................	20	1	7.00	0.00	0.00	7.00	0.00	0.00
.............................................................................................................GTTTGTTATATAATCGCAAA.........................	20	1	7.00	0.00	0.00	6.00	1.00	0.00
.................................................................................................TCACTGGGTGTAGTTTGTCGTA...................................	22	1	7.00	0.00	0.00	7.00	0.00	0.00
.................................................................................................GCACTGGGTGAAGTTTGTCGTA...................................	22	1	7.00	0.00	0.00	7.00	0.00	0.00
.................................................................................................TCACTGGGTGGAGTTTGTCGTA...................................	22	1	6.00	0.00	0.00	6.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCGCA...................................	22	1	6.00	0.00	0.00	6.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTCTCGTA...................................	22	1	6.00	0.00	0.00	6.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGATTGTCGTA...................................	22	1	5.00	0.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTGGGCGAAGTTTGGCGTA...................................	22	1	5.00	0.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTGGGTCAAGTTTGTCGTA...................................	22	1	5.00	0.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTAGTA...................................	22	1	5.00	0.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTGGGTGAACTTTGTCGTA...................................	22	1	5.00	0.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTAA..................................	23	1	5.00	0.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTTTCGT....................................	21	1	5.00	0.00	0.00	5.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGCCGTA...................................	22	1	5.00	0.00	0.00	5.00	0.00	0.00
................................................................................................CTCACTGGGTGAAGTTTGTCGTA...................................	23	1	5.00	0.00	0.00	5.00	0.00	0.00
.................................................................................................TCCCTGGGTGAAGTTTGTCGTA...................................	22	1	4.00	0.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTTAAGTTTGTCGT....................................	21	1	4.00	0.00	0.00	4.00	0.00	0.00
.................................................................................................CCACTGGGTGAAGTTTGTCGTA...................................	22	1	4.00	0.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTCA..................................	23	1	4.00	0.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTATCGTA...................................	22	1	4.00	0.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGAGTGAAGTTTGTCGTA...................................	22	1	4.00	0.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTCGTCGTA...................................	22	1	4.00	0.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTTAAGTTTGTCTTA...................................	22	1	4.00	0.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTGTCATA...................................	22	1	4.00	0.00	0.00	4.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTTTTTCGTAA..................................	23	1	4.00	0.00	0.00	4.00	0.00	0.00
.................................................................................................TCGCTGGGTGAAGTTTGTCGTA...................................	22	1	3.00	0.00	0.00	3.00	0.00	0.00
.............................................................................................................GTTTGTTATATAATCGCA...........................	18	1	3.00	0.00	0.00	3.00	0.00	0.00
.................................................................................................TCACTGGGTGGAGGTTGTCGTA...................................	22	1	3.00	0.00	0.00	3.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGGTTGGCGTA...................................	22	1	3.00	0.00	0.00	3.00	0.00	0.00
.................................................................................................TCACTGGGTGCAGTTTGTCGTC...................................	22	1	3.00	0.00	0.00	3.00	0.00	0.00
.................................................................................................TCACTGGGCGAAGTTTGTCGTAA..................................	23	1	3.00	0.00	0.00	3.00	0.00	0.00
.................................................................................................TCACTGGGTGAATTTTGTCGTAA..................................	23	1	3.00	0.00	0.00	3.00	0.00	0.00
.................................................................................................TCACTGGGTGAAGTGTGTCGTA...................................	22	1	3.00	0.00	0.00	3.00	0.00	0.00
................................................................................................ATCACTGGGTGAAGTTTGTCGT....................................	22	1	3.00	0.00	0.00	3.00	0.00	0.00

droMoj3

TA--------TA---CAA---GAACAGAATATTATAAGGTAAACTTTGTTCAGTTTTGCC----------------GGGTTCTATGTTGTG-CG-CATCACTGGGTGAAGTTTGTCGTATAATCGA--AAC--GAAACAGCAAGGAAAAAGTCC	Size	Hit Count	Total Norm	V110 Male body	V056 Unknown	V049 Head	V041 Embryo
.................................................................................................TCACTGGGTGAAGTTTGTCGTA...................................	22	1	2359.00	4.00	3.00	3.00	2349.00
.................................................................................................TCACTGGGTGAAGTTTGTCGT....................................	21	1	300.00	5.00	2.00	2.00	291.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTAA..................................	23	1	163.00	1.00	0.00	0.00	162.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTC...................................	22	1	41.00	0.00	0.00	1.00	40.00
...................................................................................................ACTGGGTGAAGTTTGTCGTA...................................	20	1	30.00	0.00	0.00	0.00	30.00
.................................................................................................TCACTGGGTGAAGTTTGTCG.....................................	20	1	30.00	0.00	1.00	1.00	28.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTAT..................................	23	1	20.00	0.00	0.00	0.00	20.00
.................................................................................................TCACTGGGTGCAGTTTGTCGTA...................................	22	1	17.00	0.00	1.00	0.00	16.00
.................................................................................................TCACTGGGTGACGTTTGTCGTA...................................	22	1	14.00	0.00	0.00	0.00	14.00
.................................................................................................GCACTGGGTGAAGTTTGTCTTA...................................	22	1	12.00	0.00	0.00	0.00	12.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTAAA.................................	24	1	9.00	0.00	0.00	0.00	9.00
.................................................................................................TCACTGGGTGAAGTTTGCCGTA...................................	22	1	9.00	0.00	0.00	0.00	9.00
.................................................................................................TCACTGGGTGTAGTTTGTCGTA...................................	22	1	7.00	0.00	0.00	0.00	7.00
.................................................................................................TCACTGGGTGAAGCTTGTCGTA...................................	22	1	7.00	0.00	0.00	0.00	7.00
.................................................................................................TCACTGGGCGAAGTTTGTCGTA...................................	22	1	7.00	0.00	0.00	0.00	7.00
.................................................................................................TCACTGGGTGATGTTTGTCGTA...................................	22	1	6.00	0.00	0.00	0.00	6.00
.................................................................................................TCACTGGGGGAAGTTTGTCGTA...................................	22	1	6.00	0.00	0.00	0.00	6.00
..........................................................CC----------------GGGTTCTATGTTGTG-CG-CA.........................................................	21	1	5.00	0.00	0.00	0.00	5.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTT...................................	22	1	5.00	0.00	0.00	0.00	5.00
.................................................................................................TCACTGGGTGAGGTTTGTCGTA...................................	22	1	5.00	0.00	0.00	0.00	5.00
.................................................................................................TCACTGGGTGAAGGTTGTCGTA...................................	22	1	4.00	0.00	0.00	0.00	4.00
.................................................................................................TCACTGGGTGGAGTTTGTCGTA...................................	22	1	4.00	0.00	0.00	0.00	4.00
...................................................................................................ACTGGGTGAAGTTTGTCGT....................................	19	1	4.00	0.00	0.00	0.00	4.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTG...................................	22	1	4.00	0.00	0.00	0.00	4.00
.................................................................................................TAACTGGGTGAAGTTTGTCGTA...................................	22	1	4.00	0.00	0.00	0.00	4.00
.................................................................................................TCACTGGGTGAAGTTTGTTGTA...................................	22	1	4.00	0.00	0.00	0.00	4.00
.................................................................................................TCACTAGGTGAAGTTTGTCGTA...................................	22	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCACTGGGTGAAGTTTGTCGCA...................................	22	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCACTGAGTGAAGTTTGTCGTA...................................	22	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCACTGGGTGAAGTTTGTCGGA...................................	22	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCACTGGATGAAGTTTGTCGTA...................................	22	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCACTGGGTGTAGTTTGGCGTA...................................	22	1	3.00	0.00	0.00	0.00	3.00
....................................AGGTAAACTTTGTTCAGTTTTG................................................................................................	22	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCACTGGGTGCAGTTTGTCGT....................................	21	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTCA..................................	23	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCACTGGGAGAAGTTTGTCGTA...................................	22	1	3.00	0.00	0.00	0.00	3.00
................................................................................................CTCACTGGGTGAAGTTTGTCGTA...................................	23	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCACTGGGTGAAGTTTGTCGTAG..................................	23	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCACTGGGTGAAGTTTGTCTTA...................................	22	1	3.00	0.00	0.00	0.00	3.00
.................................................................................................TCGCTGGGTGAAGTTTGTCGTA...................................	22	1	3.00	0.00	0.00	0.00	3.00

droGri2

AA--------AT---ATA---TAATTA-C-ATTATATGGCAAACCTTGTTCAGTTTTGAC----------------AACTTTGTTTCTGTGCAT-CATCACTGGGTGAAGTTTGTCGTATAATC--GAAAT--G----------------GATC

Size

Hit Count

Total Norm

V109
Male body

Generated: 04/20/2012 at 05:31:27 EDT

dme-mir-309

chr2R:15549211-15549279 -

Known_mirbase

intergenic

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