dme-mir-1007- Best orthologs

dme-mir-1007	chrX:21167412-21167476 -	Known_mirbase
[View on miRBase]	[View on UCSC Genome Browser {Cornell Mirror}]	mirtron

Legend:

   mature strand at position 21167413-21167434
   star strand at position 21167454-21167476
   mutations
   read mismatches

Notes: dp4 and droPer1 best hairpin folds are not the highest free-energy ones. droWil stem is barely long to hold a 21nt miR.

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

Visually pleasing best hits from LASTZ and MAF

Species	Coordinate	Source	Confidence	Alignment
dm3	chrX:21167397-21167491 -		1	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GTTC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGGATCTTCT
droSim1	chrX:12920203-12920297 +	LASTZ	1	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GTTC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droSec1	super_8:3474404-3474498 -	LASTZ	1	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GTTC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droYak2	chrX:20343121-20343215 -	LASTZ	1	ACGAATCTGTTCAGTGTAAGCAGTGTTTGAACTCGATC--TAG--GATC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droEre2	scaffold_4690:17696754-17696848 -	LASTZ	1	ACGAATCTGTTCAGTGTAAGCAGTGTTTGAACTCGATC--TGG--GATC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droEug1	scf7180000408193:314924-315018 +	LASTZ	4	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GATC--T--TGGAC------TCCTGATAAGCTCAATTAACTGTTT----GCAGCCGACGGCATATTTT
droBia1	scf7180000302187:364133-364220 +	LASTZ	4	ACGAATCTGTGCAGTGTAAGCAGTGTTTGAACTCGATC--TT-------------GGAC------TCCTGATAAGCTCAATTAACTGTTT----GCAGCCGACGGCATCTTCT
droTak1	scf7180000415158:280534-280628 +	LASTZ	4	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--CCG--GATC--C--TGAAC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
droEle1	scf7180000490214:749279-749373 +	LASTZ	4	ACGAGTCCGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GATC--T--TGGAC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGAAGGCATCTTCT
droRho1	scf7180000780082:45658-45752 +	LASTZ	4	GCGAATCCGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GATC--T--TAGAT------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGACGGCATCTTCT
droFic1	scf7180000454077:618950-619043 -	LASTZ	4	ACGAATCCGTACAGTGTAAGCAGTGCTTGAACTCGATC--TTG--GATC--T--TGGAC-------CCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
droKik1	scf7180000302395:538362-538458 -	LASTZ	4	ACGAATCAGTGCAGTGTAAGCAGTGCTTGAACTCGATC--TCG--TATTAAT--TGGTC------TTCTGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
droAna3	scaffold_13334:1054378-1054469 +	LASTZ	1	ACGAATCCGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GAATA-------GC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
droBip1	scf7180000396733:702536-702627 +	LASTZ	4	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GAATA-------GC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
dp4	chrXL_group1a:9060607-9060705 +	LASTZ	4	ACGAATCGATACAGTGTAAGCAGCGATTGA--TCAATCAATTG--AATC--GAATCGAA----TCGAATGATAAACTCCATTAACTGTTT----GCAGCCGATGGCATCTTCT
droPer1	super_15:1454063-1454161 +	LASTZ	4	ACGAATCGATACAGTGTAAGCAGCGATTGA--TCAATCAATTG--AATC--GAATCGAA----TCGAATGATAAACTCCATTAACTGTTT----GCAGCCGATGGCATCTTCT
droWil1	scaffold_180702:162895-162984 -	LASTZ	4	ATGAATCCATGCAATGTGAGT--TTTTTGATTTT---C--TTG--------T--TTAAT------TTCGAAAAACTTTAATCGACTGTATTCTATCAGCTGATGGCATCTTCT
droVir3	scaffold_12970:7925725-7925826 -	LASTZ	1	ACGAATCAATGAAATGTAAGCAGTGCTTGAGCTTATTC--TCTGGCTTCA-T--TTGAC--CATTTTCTGATAAGCTCAATTAACTGTTT----GCAGCGGATGCCGCCCTCT
droMoj3	scaffold_6482:1600635-1600734 +	LASTZ	1	ATGAGTCCATGAAATGTAAGCAGTGTTTGAACTAAATC--TCTG-GCT-ACT--TGGCC---GTATATTGATAAGCTCAACTAACTGTTT----GCAGCGGACACCTATTTGG
droGri2	scaffold_15203:11134564-11134665 +	LASTZ	1	GCGAATCAATACAATGTAAGCAGTGTTTGAACTGAATA--TCTG-GTTA--T--CCGACTTCATATACTGATAAGCTCAATTCACTGTTT----GCAGCGGATGGCGTCTTCT

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	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GTTC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGGATCTTCT
droSim1	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GTTC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droSec1	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GTTC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droYak2	ACGAATCTGTTCAGTGTAAGCAGTGTTTGAACTCGATC--TAG--GATC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droEre2	ACGAATCTGTTCAGTGTAAGCAGTGTTTGAACTCGATC--TGG--GATC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droEug1	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GATC--T--TGGAC------TCCTGATAAGCTCAATTAACTGTTT----GCAGCCGACGGCATATTTT
droBia1	ACGAATCTGTGCAGTGTAAGCAGTGTTTGAACTCGATC--TT-------------GGAC------TCCTGATAAGCTCAATTAACTGTTT----GCAGCCGACGGCATCTTCT
droTak1	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--CCG--GATC--C--TGAAC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
droEle1	ACGAGTCCGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GATC--T--TGGAC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGAAGGCATCTTCT
droRho1	GCGAATCCGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GATC--T--TAGAT------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGACGGCATCTTCT
droFic1	ACGAATCCGTACAGTGTAAGCAGTGCTTGAACTCGATC--TTG--GATC--T--TGGAC-------CCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
droKik1	ACGAATCAGTGCAGTGTAAGCAGTGCTTGAACTCGATC--TCG--TATTAAT--TGGTC------TTCTGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
droAna3	ACGAATCCGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GAATA-------GC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
droBip1	ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GAATA-------GC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
dp4	ACGAATCGATACAGTGTAAGCAGCGATTGA--TCAATCAATTG--AATC--GAATCGAA----TCGAATGATAAACTCCATTAACTGTTT----GCAGCCGATGGCATCTTCT
droPer1	ACGAATCGATACAGTGTAAGCAGCGATTGA--TCAATCAATTG--AATC--GAATCGAA----TCGAATGATAAACTCCATTAACTGTTT----GCAGCCGATGGCATCTTCT
droWil1	ATGAATCCATGCAATGTGAGT--TTTTTGATTTT---C--TTG--------T--TTAAT------TTCGAAAAACTTTAATCGACTGTATTCTATCAGCTGATGGCATCTTCT
droVir3	ACGAATCAATGAAATGTAAGCAGTGCTTGAGCTTATTC--TCTGGCTTCA-T--TTGAC--CATTTTCTGATAAGCTCAATTAACTGTTT----GCAGCGGATGCCGCCCTCT
droMoj3	ATGAGTCCATGAAATGTAAGCAGTGTTTGAACTAAATC--TCTG-GCT-ACT--TGGCC---GTATATTGATAAGCTCAACTAACTGTTT----GCAGCGGACACCTATTTGG
droGri2	GCGAATCAATACAATGTAAGCAGTGTTTGAACTGAATA--TCTG-GTTA--T--CCGACTTCATATACTGATAAGCTCAATTCACTGTTT----GCAGCGGATGGCGTCTTCT

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

ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GTTC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT	Size	Hit Count	Total Norm	V044 Embryo	M023 Head	M024 Male body	M025 Embryo
...............GTAAGCAGTGTTTGAACTCGATC--TTG--G...................................................................	27	1	298.00	1.00	3.00	279.00	15.00
.......................................................................TAAGCTCAATTAACTGTTT----GC.................	21	1	149.00	0.00	137.00	11.00	1.00
...............GTAAGCAGTGTTTGAACTC...............................................................................	19	1	96.00	1.00	7.00	77.00	11.00
.................AAGCAGTGTTTGAACTCGATC--TTG--G...................................................................	25	1	66.00	0.00	1.00	60.00	5.00
..............................................TTC--T--TGGAC------TCTTGATAAGCTCA..................................	23	1	64.00	0.00	0.00	63.00	1.00
..............................................TTC--T--TGGAC------TCTTGATAAGCTC...................................	22	1	49.00	0.00	1.00	37.00	11.00
..............................................TTC--T--TGGAC------TCTTGATAAGCT....................................	21	1	35.00	0.00	0.00	30.00	5.00
................................................C--T--TGGAC------TCTTGATAAGCTCA..................................	21	1	33.00	0.00	0.00	28.00	5.00
...............GTAAGCAGTGTTTGAACTCGATC--.........................................................................	23	1	32.00	0.00	6.00	7.00	19.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAG...............	23	1	25.00	10.00	12.00	1.00	2.00
...............GTAAGCAGTGTTTGAACT................................................................................	18	1	25.00	5.00	0.00	18.00	2.00
.......................TGTTTGAACTCGATC--TTG--G...................................................................	19	1	20.00	0.00	0.00	18.00	2.00
................................................C--T--TGGAC------TCTTGATAAGCT....................................	19	1	19.00	0.00	0.00	19.00	0.00
...................GCAGTGTTTGAACTCGATC--TTG--G...................................................................	23	1	18.00	0.00	0.00	14.00	4.00
................................................C--T--TGGAC------TCTTGATAAGCTC...................................	20	1	18.00	0.00	0.00	16.00	2.00
...............................................TC--T--TGGAC------TCTTGATAAGCTCA..................................	22	1	17.00	1.00	0.00	12.00	4.00
...............GTAAGCAGTGTTTGAACTCGATC--T........................................................................	24	1	15.00	0.00	3.00	6.00	6.00
......................GTGTTTGAACTCGATC--TTG--G...................................................................	20	1	13.00	1.00	0.00	10.00	2.00
................................................C--T--TGGAC------TCTTGATAAGCTCAATTAAC............................	27	1	13.00	0.00	0.00	10.00	3.00
................................................C--T--TGGAC------TCTTGATAAGCTCAATTAACT...........................	28	1	13.00	0.00	0.00	12.00	1.00
..............................................TTC--T--TGGAC------TCTTGATAAGC.....................................	20	1	10.00	0.00	0.00	4.00	6.00
...............................................TC--T--TGGAC------TCTTGATAAGCTC...................................	21	1	10.00	0.00	1.00	4.00	5.00
.....................................C--TTG--GTTC--T--TGGAC------TCTTGATAAGCT....................................	26	1	10.00	0.00	0.00	9.00	1.00
.....................AGTGTTTGAACTCGATC--TTG--G...................................................................	21	1	9.00	0.00	0.00	8.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----GCA................	22	1	9.00	2.00	6.00	0.00	1.00
................................................C--T--TGGAC------TCTTGATAAGC.....................................	18	1	8.00	0.00	0.00	4.00	4.00
.......................................................................TAAGCTCAATTAACTGTTT----G..................	20	1	8.00	0.00	8.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--TTG--GT..................................................................	28	1	8.00	0.00	0.00	7.00	1.00
..............................ACTCGATC--TTG--GTTC--T--TGGAC------T...............................................	22	1	7.00	0.00	1.00	4.00	2.00
...................................................T--TGGAC------TCTTGATAAGCTC...................................	19	1	7.00	0.00	0.00	1.00	6.00
................................................C--T--TGGAC------TCTTGATAAGCTCAA.................................	22	1	7.00	0.00	0.00	3.00	4.00
.............................................GTTC--T--TGGAC------TCTTGATAAGCTC...................................	23	1	6.00	0.00	0.00	5.00	1.00
......................GTGTTTGAACTCGATC--TTG--GT..................................................................	21	1	6.00	0.00	0.00	3.00	3.00
...............................................TC--T--TGGAC------TCTTGATAAGCT....................................	20	1	6.00	0.00	0.00	5.00	1.00
...............GTAAGCAGTGTTTGAACTCGATC--TTG--....................................................................	26	1	5.00	0.00	0.00	3.00	2.00
..............................................TTC--T--TGGAC------TCTTGATAAGCTCAA.................................	24	1	5.00	0.00	0.00	5.00	0.00
..............................................TTC--T--TGGAC------TCTTGATAAGCTCAATTAAC............................	29	1	5.00	0.00	0.00	5.00	0.00
.............................................GTTC--T--TGGAC------TCTTGATAAGCT....................................	22	1	5.00	0.00	0.00	2.00	3.00
.......................................................................TAAGCTCAATTAACTGTT........................	18	1	5.00	0.00	5.00	0.00	0.00
...............................................TC--T--TGGAC------TCTTGATAAGCTCAATTAAC............................	28	1	5.00	0.00	0.00	3.00	2.00
..............................................TTC--T--TGGAC------TCTTGATAAGCC....................................	21	1	4.00	0.00	0.00	3.00	1.00
..................................GATC--TTG--GTTC--T--TGGAC------TCTTG...........................................	22	1	4.00	0.00	0.00	4.00	0.00
...................................................T--TGGAC------TCTTGATAAGCT....................................	18	1	4.00	0.00	0.00	3.00	1.00
...............TTAAGCAGTGTTTGAACTCGATC--TTG--G...................................................................	27	1	4.00	0.00	0.00	4.00	0.00
...............................................TC--T--TGGAC------TCTTGATAAGCTCAATTAACT...........................	29	1	4.00	0.00	0.00	3.00	1.00
....................CAGTGTTTGAACTCGATC--TTG--G...................................................................	22	1	3.00	0.00	0.00	3.00	0.00
..................AGCAGTGTTTGAACTCGATC--TTG--G...................................................................	24	1	3.00	0.00	0.00	3.00	0.00
...............................CTCGATC--TTG--GTTC--T--TGGAC------TCTTGAT.........................................	27	1	3.00	0.00	0.00	2.00	1.00
...............................................TC--T--TGGAC------TCTTGATAAGC.....................................	19	1	3.00	0.00	0.00	1.00	2.00
........................................TTG--GTTC--T--TGGAC------TCTTGA..........................................	19	1	3.00	0.00	1.00	0.00	2.00

droSec1

ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GTTC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT	Size	Hit Count	Total Norm	V113 Male body	V114 Embryo	V115 Head
.......................................................................TAAGCTCAATTAACTGTTT----GCA................	22	1	75.00	5.00	8.00	62.00
.......................................................................TAAGCTCAATTAACTGTTT----G..................	20	1	71.00	6.00	1.00	64.00
.......................................................................TAAGCTCAATTAACTGTTT----GC.................	21	1	43.00	1.00	0.00	42.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAG...............	23	1	41.00	4.00	16.00	21.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGT..............	24	1	26.00	1.00	21.00	4.00
...............GTAAGCAGTGTTTGAACT................................................................................	18	1	23.00	0.00	18.00	5.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGA..............	24	1	22.00	3.00	11.00	8.00
...............GTAAGCAGTGTTTGAACTCGATC--TTG--G...................................................................	27	1	11.00	5.00	6.00	0.00
...............GTAAGCAGTGTTTGAACTC...............................................................................	19	1	9.00	2.00	6.00	1.00
...............GTAAGCAGTGTTTGAACTCGATC--.........................................................................	23	1	6.00	0.00	6.00	0.00
................................................C--T--TGGAC------TCTTGATAAGCTCA..................................	21	1	6.00	2.00	4.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGTT.............	25	1	6.00	1.00	0.00	5.00
..............................................TTC--T--TGGAC------TCTTGATAAGCTCA..................................	23	1	5.00	2.00	2.00	1.00
...............GTAAGCAGTGTTTGAACTCGATC--T........................................................................	24	1	3.00	1.00	0.00	2.00
...............GTAAGCAGTGTTTGAACTCG..............................................................................	20	1	3.00	2.00	1.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--TTG--GT..................................................................	28	1	3.00	3.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--TTG--....................................................................	26	1	2.00	1.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----...................	19	1	2.00	0.00	1.00	1.00
...................GCAGTGTTTGAACTCGATC--TTG--G...................................................................	23	1	2.00	0.00	2.00	0.00
.......................................................................TAAGCCCAATTAACTGTTT----G..................	20	1	2.00	0.00	0.00	2.00
..............................................TTC--T--TGGAC------TCTTGATAAGCTC...................................	22	1	2.00	1.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGTA.............	25	1	2.00	0.00	0.00	2.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAC...............	23	1	2.00	0.00	2.00	0.00
.......................................................................TATGCTCAATTAACTGTTT----GCAGT..............	24	1	2.00	0.00	0.00	2.00
.......................TGTTTGAACTCGATC--TTG--G...................................................................	19	1	1.00	0.00	1.00	0.00
...................GCAATGTTTGAACTCGATC--TTG--G...................................................................	23	1	1.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCACA..............	24	1	1.00	0.00	0.00	1.00
......................................................................CTAAGCTCAATTAACTGTTT----GCA................	23	1	1.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTC----G..................	20	1	1.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAA...............	23	1	1.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGAA.............	25	1	1.00	1.00	0.00	0.00
...............GTATGCAGTGTTTGAACT................................................................................	18	1	1.00	0.00	1.00	0.00
..............................................TTC--T--TGGAC------TCTTGATAAGCTCAA.................................	24	1	1.00	1.00	0.00	0.00
......................................................................CTAAGCTCAATTAACTGTTT----GC.................	22	1	1.00	0.00	0.00	1.00
................TAAGCAGTGTTTGAACTCGATC--T........................................................................	23	1	1.00	0.00	1.00	0.00
......................................................................ATAAGCTCAATTAACTGTTT----GCAGT..............	25	1	1.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGCTT----GCA................	22	1	1.00	0.00	0.00	1.00
...............GTAAGCAGTGTTTGAACTCGAT............................................................................	22	1	1.00	0.00	1.00	0.00
...............................................TC--T--TGGAC------TCTTGATAAGCT....................................	20	1	1.00	1.00	0.00	0.00
...................................................T--TGGAC------TCTTGATAAGCTCA..................................	20	1	1.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTACCTGCTT----G..................	20	1	1.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTCT----GCA................	22	1	1.00	1.00	0.00	0.00
......................................................................ATAAGCTCAATTAACTGT.........................	18	1	1.00	0.00	1.00	0.00
................................................C--T--TGGAC------TCTTGATAAGCTC...................................	20	1	1.00	1.00	0.00	0.00
.......................................................................GAAGCTCAATTAACTGTTT----GCAGT..............	24	1	1.00	0.00	0.00	1.00
.......................................................................TAAGCTCACTTAACTGTTT----GC.................	21	1	1.00	0.00	0.00	1.00
..............................................TTC--T--TGGAC------TCTTGATAAGC.....................................	20	1	1.00	0.00	1.00	0.00
.......................................................................TAAGCTTAATTAACTGTTT----GCA................	22	1	1.00	0.00	0.00	1.00
.................AAGCAGTGTTTGAACTCGATC--TTG--GT..................................................................	26	1	1.00	1.00	0.00	0.00
.......................................................................TACGCTCAATTAACTGTTT----GCAGT..............	24	1	1.00	1.00	0.00	0.00
.................AAGCAGTGTTTGAACTCGATC--TTG--G...................................................................	25	1	1.00	0.00	1.00	0.00
.......................................................................TAAGCTTAATTAACTGTTT----G..................	20	1	1.00	0.00	0.00	1.00
...............GCAAGCAGTGTTTGAACTTGATC--TTG--....................................................................	26	1	1.00	1.00	0.00	0.00
...................................................................TTGATAAGCTCAATTAACT...........................	19	1	1.00	0.00	1.00	0.00
.........................................................................AGCTCAATTAACTGTTT----G..................	18	1	1.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTCTTT----G..................	20	1	1.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAGCTGTTT----GCA................	22	1	1.00	0.00	0.00	1.00
...............GTAAGCAGTTTTTGAACT................................................................................	18	1	1.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTGCTT----GCAGA..............	24	1	1.00	1.00	0.00	0.00
.........................................................................AGCTCAATTAACTGTTT----GCAGT..............	22	1	1.00	0.00	0.00	1.00
.......................................................................TAAGCTAAATTAACTGTTT----GCA................	22	1	1.00	0.00	0.00	1.00
.........................................................AC------TCTTGATAAGCTCAATTAACTGTT........................	26	1	1.00	0.00	1.00	0.00

droYak2

ACGAATCTGTTCAGTGTAAGCAGTGTTTGAACTCGATC--TAG--GATC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
.......................................................................TAAGCTCAATTAACTGTTT----GC.................	21	1	60.00	0.00	7.00	1.00	8.00	44.00
.......................................................................TAAGCTCAATTAACTGTTT----GCA................	22	1	44.00	5.00	11.00	2.00	18.00	8.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAG...............	23	1	22.00	9.00	1.00	2.00	5.00	5.00
........................................TAG--GATC--T--TGGAC------TCTTGA..........................................	19	1	22.00	0.00	2.00	0.00	1.00	19.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGT..............	24	1	18.00	2.00	3.00	3.00	10.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--.........................................................................	23	1	16.00	1.00	0.00	1.00	0.00	14.00
.......................................................................TAAGCTCAATTAACTGTTT----G..................	20	1	16.00	0.00	6.00	0.00	9.00	1.00
...............GTAAGCAGTGTTTGAACTCGATC--TAG--....................................................................	26	1	5.00	0.00	0.00	5.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--T........................................................................	24	1	4.00	0.00	0.00	1.00	0.00	3.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGA..............	24	1	4.00	0.00	1.00	0.00	3.00	0.00
.......................................................................TAAGCTCAATTAACTGTT........................	18	1	4.00	0.00	0.00	0.00	0.00	4.00
...............................................TC--T--TGGAC------TCTTGATAAGCTCA..................................	22	1	4.00	0.00	0.00	4.00	0.00	0.00
...............................................TC--T--TGGAC------TCTTGATAAGCTC...................................	21	1	3.00	0.00	0.00	2.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGTT.............	25	1	3.00	1.00	1.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----...................	19	1	2.00	0.00	0.00	0.00	0.00	2.00
.............................................GATC--T--TGGAC------TCTTGATAAGCT....................................	22	1	2.00	0.00	0.00	1.00	0.00	1.00
........................................TAG--GATC--T--TGGAC------TCTTGG..........................................	19	1	2.00	0.00	0.00	0.00	0.00	2.00
...............................................TC--T--TGGAC------TCTTGATAAGCT....................................	20	1	2.00	0.00	0.00	1.00	0.00	1.00
...............GTAAGCAGTGTTTGAACTC...............................................................................	19	1	2.00	1.00	0.00	1.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--TAG--G...................................................................	27	1	2.00	0.00	0.00	1.00	0.00	1.00
...............GTAAGCAGTGTTTGAACTCGATC--TA.......................................................................	25	1	2.00	0.00	0.00	2.00	0.00	0.00
................................................C--T--TGGAC------TCTTGATAAGCTCA..................................	21	1	2.00	0.00	0.00	2.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--TAG--GA..................................................................	28	1	2.00	0.00	0.00	2.00	0.00	0.00
...............GTAAGCAGTGTTTGAACT................................................................................	18	1	2.00	1.00	0.00	1.00	0.00	0.00
........................................TAG--GATC--T--TGGAC------TCTTGC..........................................	19	1	1.00	0.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----GCATT..............	24	1	1.00	0.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTCCCTGTTT----G..................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
.....................................C--TAG--GATC--T--TGGAC------TCTTGATAAGCTCA..................................	28	1	1.00	0.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----TCAG...............	23	1	1.00	0.00	1.00	0.00	0.00	0.00
............................GAACTCGATC--TAG--GATC--T--TGGAC------TCTTGG..........................................	29	1	1.00	0.00	0.00	0.00	0.00	1.00
.......................................................................TAAGATCAATTAACTGTTT----GCAGT..............	24	1	1.00	1.00	0.00	0.00	0.00	0.00
.............................................GATC--T--TGGAC------TCTTGATAAGCTCA..................................	24	1	1.00	0.00	0.00	1.00	0.00	0.00
........................................TAG--GATC--T--TGGAC------TCTTGATAAGCT....................................	25	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................GATC--T--TGGAC------TCTGGATAAGCTC...................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
....................................TC--TAG--GATC--T--TGGAC------TCT.............................................	18	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GTAAGCAGTGTTTGAACTCGA.............................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................ATAAGCTCAATTAACTGTTT----GC.................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTC----CC.................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAT...............	23	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................TCAATTAACTGTTT----GCAGT..............	19	1	1.00	1.00	0.00	0.00	0.00	0.00
.......................................................................TAAGCTCGATTAACTGTTT----GC.................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTGACTGTTT----GC.................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
.....................................C--TAG--GATC--T--TGGAC------TCTTGATAAGCT....................................	26	1	1.00	0.00	0.00	0.00	0.00	1.00
...........................................................................CTCCATTAACTGTTT----GCAGT..............	20	1	1.00	0.00	0.00	1.00	0.00	0.00
................................................C--T--TGGAC------TCTTGATAAGCT....................................	19	1	1.00	0.00	0.00	0.00	0.00	1.00
.........................................................................................T----GCxGGGGACGGCATCTT..	17	1	1.00	0.00	0.00	0.00	1.00	0.00
...........................................................................CTCAATTAACTGTTT----GCAGT..............	20	1	1.00	0.00	0.00	1.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCG..............................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
........................................TAG--GATG--T--TGGAC------TCTTGA..........................................	19	1	1.00	0.00	0.00	0.00	1.00	0.00
.......................................................................TACGCTCAATTAACTGTTT----G..................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCC................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
......................................................................ATAAGCTCAATTAACTGTTT----T..................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
..............................................ATC--T--TGGAC------TCTTGATAAGCTC...................................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAAGTAACTGTTT----TCA................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
..............................................ATC--T--TGGAC------TCTTGATAAGCTCA..................................	23	1	1.00	0.00	0.00	1.00	0.00	0.00
...............................................TC--T--TGGAC------TCTTGATAAGCTCAATTAACT...........................	29	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GTAAGCCGTGTTTGAACT................................................................................	18	1	1.00	0.00	0.00	0.00	1.00	0.00

droEre2

ACGAATCTGTTCAGTGTAAGCAGTGTTTGAACTCGATC--TGG--GATC--T--TGGAC------TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
.......................................................................TAAGCTCAATTAACTGTTT----GCA................	22	1	265.00	0.00	55.00	0.00	210.00
.......................................................................TAAGCTCAATTAACTGTTT----GC.................	21	1	212.00	2.00	16.00	0.00	194.00
.......................................................................TAAGCTCAATTAACTGTTT----G..................	20	1	136.00	0.00	13.00	0.00	123.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAG...............	23	1	129.00	6.00	6.00	0.00	117.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGA..............	24	1	19.00	0.00	4.00	0.00	15.00
...............GTAAGCAGTGTTTGAACTCGATC--.........................................................................	23	1	8.00	0.00	2.00	0.00	6.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGTT.............	25	1	7.00	0.00	0.00	0.00	7.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGT..............	24	1	7.00	0.00	4.00	0.00	3.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAA...............	23	1	4.00	0.00	0.00	0.00	4.00
.......................................................................TAATCTCAATTAACTGTTT----GCA................	22	1	4.00	0.00	0.00	0.00	4.00
...............GTAAGCAGTGTTTGAACT................................................................................	18	1	4.00	0.00	0.00	0.00	4.00
.......................................................................TAAGCTAAATTAACTGTTT----GCA................	22	1	4.00	0.00	0.00	0.00	4.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGTA.............	25	1	3.00	0.00	0.00	0.00	3.00
.......................................................................TAAGCTCAATTAACTGTCT----GC.................	21	1	3.00	0.00	0.00	0.00	3.00
................TAAGCAGTGTTTGAACTCGATC--.........................................................................	22	1	3.00	0.00	1.00	0.00	2.00
...............GTAAGCAGTGTTTGAACTCG..............................................................................	20	1	3.00	0.00	0.00	0.00	3.00
.......................................................................TAAGCTCAATTAACTGTTT----TCA................	22	1	3.00	0.00	0.00	0.00	3.00
...AATCTGxTCAGTGTAAGGA...........................................................................................	18	1	2.00	2.00	0.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--TGG--....................................................................	26	1	2.00	0.00	0.00	0.00	2.00
.......................................................................TAATCTCAATTAACTGTTT----G..................	20	1	2.00	0.00	0.00	0.00	2.00
.......................................................................TAAGCTCAATTAACTGTTT----TC.................	21	1	2.00	0.00	0.00	0.00	2.00
...............GTAAGCAGTGTTTGAACTCGA.............................................................................	21	1	2.00	0.00	0.00	0.00	2.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAT...............	23	1	2.00	0.00	0.00	0.00	2.00
.......................................................................TAAGATCAATTAACTGTTT----GCA................	22	1	2.00	0.00	0.00	0.00	2.00
.......................................................................TAAGCTCAATTAACTTTTT----G..................	20	1	2.00	0.00	0.00	0.00	2.00
.......................................................................CAAGCTCAATTAACTGTTT----GC.................	21	1	2.00	0.00	0.00	0.00	2.00
.......................................................................TAAGCTCAATTAACTGTT........................	18	1	2.00	0.00	0.00	0.00	2.00
.......................................................................TAACCTCAATTAACTGTTT----GCAG...............	23	1	2.00	0.00	0.00	0.00	2.00
........................................................................AAGCTCAATTAACTGTTT----GC.................	20	1	1.00	0.00	0.00	0.00	1.00
.................AACCAGTGTTTCAACTCGATC--T........................................................................	22	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCATT..............	24	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAATCTCAATTAACTGTTT----GCAG...............	23	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAAATGTTT----GA.................	21	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTAAATTAACTGTTT----GC.................	21	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----...................	19	1	1.00	0.00	0.00	0.00	1.00
......................................................................CTAAGCTCAATTAACTGTTT----GCA................	23	1	1.00	0.00	1.00	0.00	0.00
......................................................................CTAAGCTCAATTAACTGTTT----GCAG...............	24	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGATT----GCA................	22	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAAGTGTTT----GCAG...............	23	1	1.00	0.00	0.00	0.00	1.00
.......................................................................GAAGCTCAATTAACTGTTT----G..................	20	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAGTTAACTGTTT----GC.................	21	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAAATGTTT----GC.................	21	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----GCG................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTGACTGTTT----GCA................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................ATAAGCTCAATTAACTGTTT----GC.................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTTTTT----GCAGA..............	24	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----ACA................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCCATTAACTGTTT----GCAG...............	23	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TACGCTCAATTAACTGTTT----GCA................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCGATTAACTGTTT----GC.................	21	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTxTTT----GCA................	21	1	1.00	0.00	0.00	0.00	1.00
...............GTAAGCAGTGTTTGAACTCGATC--TG.......................................................................	25	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCCATTAACTGTTT----GCAGT..............	24	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAAATGTTT----G..................	20	1	1.00	0.00	0.00	0.00	1.00
...............GTAAGCAGTGTTTGAACTCGAT............................................................................	22	1	1.00	1.00	0.00	0.00	0.00
...................................................T--TGGAC------TCTTGATAAGCTCA..................................	20	1	1.00	0.00	0.00	0.00	1.00
.......................................................................CAAGCTCAATTAACTGTTT----GCA................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTG----...................	19	1	1.00	0.00	0.00	0.00	1.00
...............GTAAGCAGTGTTTGAACTC...............................................................................	19	1	1.00	0.00	0.00	0.00	1.00
.......TGTTCAATGTAAGTAGTG........................................................................................	18	1	1.00	0.00	0.00	0.00	1.00
...............GTAAGCAGTGTTTGAACTCGATC--TGG--G...................................................................	27	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTTTTT----GC.................	21	1	1.00	0.00	0.00	0.00	1.00
......................................................................ATAAGCTCAATTAACTGTTT----GCA................	23	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGTTCAATTAACTGTTT----G..................	20	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAAA..............	24	1	1.00	0.00	1.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--TTT--G...................................................................	27	1	1.00	1.00	0.00	0.00	0.00
...............................................TC--T--TGGAC------TCTTGATAAGCTCA..................................	22	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTTTTT----GCA................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAC...............	23	1	1.00	0.00	0.00	0.00	1.00
....................CAGTGTTTGAACTCGATC--TGG--G...................................................................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----GGA................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTTAATTAACTGTTT----GCAG...............	23	1	1.00	0.00	0.00	0.00	1.00
...............GTAAGTAGTGTTTGAACTCGATC--.........................................................................	23	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TGAGCTCAATTAACTGTTT----G..................	20	1	1.00	0.00	0.00	0.00	1.00
.....................................................................GATAAGCTCAATTAACTGTTT----GCAGT..............	26	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGTTCAATTAACTGTTT----GCAG...............	23	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTAAATTAACTGTTT----GCAA...............	23	1	1.00	0.00	0.00	0.00	1.00
.................................CGATC--TGG--GATC--T--TGGAC------TCTTGATA........................................	26	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAACCTCAATTAACTGTTT----GCA................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----CCA................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAGCTGTTT----GCA................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTTAATTAACTGTTT----GC.................	21	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAGGCTCAATTAACTGTTT----GCA................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGATCAATTAAATGTTT----GC.................	21	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACxxTTT----GCAG...............	21	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TACGCTAAATTAACTGTTT----GC.................	21	1	1.00	0.00	0.00	0.00	1.00
.........................................................................AGCTCAATTAACTGTTT----GCAGT..............	22	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAGCTGTTT----G..................	20	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTTTTT----GCAG...............	23	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAATTAACTGxTT----GCAG...............	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCGCAATTAACTGTTT----GCA................	22	1	1.00	0.00	0.00	0.00	1.00

droEug1

ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GATC--T--TGGAC------TCCTGATAAGCTCAATTAACTGTTT----GCAGCCGACGGCATATTTT

Size

Hit Count

Total Norm

droBia1

ACGAATCTGTGCAGTGTAAGCAGTGTTTGAACTCGATC--TT-------------GGAC------TCCTGATAAGCTCAATTAACTGTTT----GCAGCCGACGGCATCTTCT

Size

Hit Count

Total Norm

droTak1

ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--CCG--GATC--C--TGAAC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT

Size

Hit Count

Total Norm

droEle1

ACGAGTCCGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GATC--T--TGGAC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGAAGGCATCTTCT

Size

Hit Count

Total Norm

droRho1

GCGAATCCGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GATC--T--TAGAT------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGACGGCATCTTCT

Size

Hit Count

Total Norm

droFic1

ACGAATCCGTACAGTGTAAGCAGTGCTTGAACTCGATC--TTG--GATC--T--TGGAC-------CCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT

Size

Hit Count

Total Norm

droKik1

ACGAATCAGTGCAGTGTAAGCAGTGCTTGAACTCGATC--TCG--TATTAAT--TGGTC------TTCTGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT

Size

Hit Count

Total Norm

droAna3

ACGAATCCGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GAATA-------GC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT	Size	Hit Count	Total Norm	V105 Male body	V106 Head	V055 Unknown	V039 Embryo
.......................................................................TAAGCTCAATTAACTGTTT----G..................	20	1	136.00	5.00	105.00	26.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GC.................	21	1	131.00	4.00	107.00	19.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAG...............	23	1	85.00	2.00	65.00	7.00	11.00
.......................................................................TAAGCTCAATTAACTGTTT----GCA................	22	1	79.00	8.00	43.00	26.00	2.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGT..............	24	1	21.00	8.00	5.00	8.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--.........................................................................	23	1	7.00	0.00	7.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGTT.............	25	1	6.00	1.00	3.00	2.00	0.00
...............GTAAGCAGTGTTTGAACTC...............................................................................	19	1	3.00	0.00	2.00	0.00	1.00
.......................................................................TAATCTCAATTAACTGTTT----GC.................	21	1	3.00	0.00	3.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCG..............................................................................	20	1	3.00	0.00	3.00	0.00	0.00
.......................................................................TAATCTCAATTAACTGTTT----G..................	20	1	3.00	0.00	3.00	0.00	0.00
......................................................................ATAAGCTCAATTAACTGTTT----G..................	21	1	3.00	0.00	3.00	0.00	0.00
.......................................................................TAAGTTCAATTAACTGTTT----GC.................	21	1	2.00	0.00	2.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--TTG--G...................................................................	27	1	2.00	1.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGA..............	24	1	2.00	1.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GA.................	21	1	2.00	0.00	1.00	1.00	0.00
................GTAGCAGTGTTTGAACTCGATC--.........................................................................	22	1	2.00	0.00	2.00	0.00	0.00
.......................................................................TAAGATCAATTAACTGTTT----G..................	20	1	2.00	0.00	1.00	1.00	0.00
.......................................................................TAAGCTAAATTAACTGTTT----G..................	20	1	2.00	0.00	2.00	0.00	0.00
...............GTAAGCAGTGTTTGAACT................................................................................	18	1	2.00	0.00	2.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----TC.................	21	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAATTGTTT----GCT................	22	1	1.00	0.00	0.00	1.00	0.00
.......................................................................CACGCTCAATTAACTGTTT----GCAG...............	23	1	1.00	0.00	1.00	0.00	0.00
..................................GATC--TTG--GAATA-------GC------TCCCGATAA.......................................	23	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAGGCTCAATTAACTGTTT----GC.................	21	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAA...............	23	1	1.00	0.00	1.00	0.00	0.00
............................GAACTCGAGC--GTG--GAATA-------GC------T...............................................	21	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGATCAATTAACTATTT----GCA................	22	1	1.00	0.00	0.00	1.00	0.00
...............GTAAGCAGTGTTTGAACTCGATC--T........................................................................	24	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACCGTTT----GCAG...............	23	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACCGTTT----GC.................	21	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTGT----T..................	20	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGATCAATTAACTGTTT----GCT................	22	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCCCAATTAACTGTTT----GC.................	21	1	1.00	0.00	1.00	0.00	0.00
......................................................................ATAAGCTCAATTAACTGTTT----GCAG...............	24	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCACAATTAACTGTCT----G..................	20	1	1.00	0.00	0.00	1.00	0.00
......................................................................ATAAGCTCACTCAACTGTTT----G..................	21	1	1.00	0.00	0.00	1.00	0.00
.............................................GAATA-------GC------TCCCGATAATCT....................................	19	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGATCAATTAACTGTTT----GC.................	21	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTCT----GCAT...............	23	1	1.00	0.00	1.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTAGA.............................................................................	21	1	1.00	1.00	0.00	0.00	0.00
...............................CTCGATC--TTG--GAATA-------GC------TCC.............................................	20	1	1.00	1.00	0.00	0.00	0.00
........................................TTG--GAATA-------GC------TCCCGATAAGCT....................................	22	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTTTTT----GCA................	22	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCGATTAACTGTTT----GCAGT..............	24	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTCACTGTTT----G..................	20	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAATCTCAATTAACTGTTT----T..................	20	2	0.50	0.00	0.50	0.00	0.00
.......................................................................TAAGCTCATTTAACTTTTT----GCA................	22	1	1.00	0.00	1.00	0.00	0.00
......................................................................ATAATCTCAATTAACTGTTT----GC.................	22	1	1.00	0.00	1.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTCGAT............................................................................	22	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGATCAATTAACTGATT----GCA................	22	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTCCTT----GCA................	22	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAATTGTTT----GCAG...............	23	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTA----GC.................	21	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTGGTT----G..................	20	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCTATTAACTGTGT----G..................	20	1	1.00	0.00	0.00	1.00	0.00
........................................................................AAGCTCAATTAACTGTTT----GCA................	21	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAGTTAACTGTTT----GCA................	22	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAGGCTCAATTAACTGTTT----G..................	20	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCACTTACCTGTTT----GCA................	22	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAACxGTTT----GCAGT..............	23	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCATTTAACTGTTT----T..................	20	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----T..................	20	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGATT----G..................	20	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTCACTGTTT----GC.................	21	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTGACTGTTT----GC.................	21	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----...................	19	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCGCAATTAACTGTTT----GCAG...............	23	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTAAATTAACTGTTT----GC.................	21	1	1.00	0.00	1.00	0.00	0.00
.......................................................................GAAGCTCAATTAACTGTTT----GC.................	21	1	1.00	0.00	0.00	1.00	0.00
...............GTAAGCAGCGTTTGAACT................................................................................	18	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----TCAG...............	23	1	1.00	0.00	0.00	0.00	1.00
........................................TTG--GAATA-------GC------TCCCGATAAGC.....................................	21	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAATTAACTGCTT----G..................	20	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAAGTGTTT----GCAG...............	23	1	1.00	0.00	0.00	0.00	1.00
...............GTAAGCAGTGTATGAACTC...............................................................................	19	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCATTTAACTGTTT----GCA................	22	1	1.00	0.00	1.00	0.00	0.00

droBip1

ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--TTG--GAATA-------GC------TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT

Size

Hit Count

Total Norm

dp4

ACGAATCGATACAGTGTAAGCAGCGATTGA--TCAATCAATTG--AATC--GAATCGAA----TCGAATGATAAACTCCATTAACTGTTT----GCAGCCGATGGCATCTTCT	Size	Hit Count	Total Norm	V112 Male body	V043 Embryo	V051 Head	M022 Male body
......................................AATCG--AATC--GAATCTAA----TCG...............................................	20	1	1.00	1.00	0.00	0.00	0.00
......................................AATCG--AATC--GAATCGAA----TCGA..............................................	21	1	1.00	1.00	0.00	0.00	0.00

droPer1

ACGAATCGATACAGTGTAAGCAGCGATTGA--TCAATCAATTG--AATC--GAATCGAA----TCGAATGATAAACTCCATTAACTGTTT----GCAGCCGATGGCATCTTCT	Size	Hit Count	Total Norm	V111 Male body	V042 Embryo	V050 Head	V057 Head	M021 Embryo
.............................................GATC--GAATCGAA----TCGGAT............................................	18	1	2.00	0.00	0.00	0.00	0.00	2.00
..........................................G--AATC--AAATCGTA----TCGAAT............................................	19	1	2.00	0.00	0.00	0.00	0.00	2.00
.......GATACAGTGTACGGAGCG........................................................................................	18	1	1.00	0.00	1.00	0.00	0.00	0.00
.........................................AG--AATC--GAATCGAA----TCGA..............................................	18	1	1.00	0.00	0.00	0.00	1.00	0.00
..........................................G--AATC--GAATCGAA----TTGAGT............................................	19	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GTAAGCAGCGATTGA--TCAAT............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
.......GATGCAGTGTAAGGAGCG........................................................................................	18	1	1.00	1.00	0.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCA................	22	1	1.00	0.00	1.00	0.00	0.00	0.00

droWil1

ATGAATCCATGCAATGTGAGT--TTTTTGATTTT---C--TTG--------T--TTAAT------TTCGAAAAACTTTAATCGACTGTATTCTATCAGCTGATGGCATCTTCT

Size

Hit Count

Total Norm

V117
Male body

V118
Embryo

V119
Head

M020
Head

droVir3

ACGAATCAATGAAATGTAAGCAGTGCTTGAGCTTATTC--TCTGGCTTCA-T--TTGAC--CATTTTCTGATAAGCTCAATTAACTGTTT----GCAGCGGATGCCGCCCTCT	Size	Hit Count	Total Norm	V116 Male body	V053 Unknown	V047 Embryo	M027 Male body	M028 Head
...............GTAAGCAGTGCTTGAGCTTA..............................................................................	20	1	499.00	468.00	19.00	8.00	3.00	1.00
.........................................................................AGCTCAATTAACTGTTT----GCAGT..............	22	1	136.00	22.00	104.00	7.00	2.00	1.00
.......................................................................TAAGCTCAATTAACTGTTT----G..................	20	1	18.00	0.00	18.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GC.................	21	1	15.00	0.00	5.00	0.00	2.00	8.00
.......................................................................TAAGCTCAATTAACTGTTT----GCA................	22	1	13.00	3.00	10.00	0.00	0.00	0.00
........................................................................AAGCTCAATTAACTGTTT----GCAGT..............	23	1	12.00	7.00	3.00	2.00	0.00	0.00
.........................................................................AGCTCAATTAACTGTTT----GCAGA..............	22	1	6.00	1.00	5.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGAGCTT...............................................................................	19	1	5.00	1.00	3.00	0.00	0.00	1.00
...............GTAAGCAGTGCTTGAGCTTATT............................................................................	22	1	4.00	0.00	4.00	0.00	0.00	0.00
.........................................................................AGCTCAATTAACTGTTT----GCA................	20	1	3.00	0.00	3.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGAGCATA..............................................................................	20	1	3.00	3.00	0.00	0.00	0.00	0.00
.........................................................................AGCTCAATTAACTGTTT----GCAGTC.............	23	1	3.00	1.00	2.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAG...............	23	1	3.00	0.00	2.00	1.00	0.00	0.00
.........................................................................AGCTCAATTAACTGTTT----GCAGTT.............	23	1	3.00	0.00	3.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGCGCTTA..............................................................................	20	1	3.00	2.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTT........................	18	1	2.00	0.00	0.00	0.00	0.00	2.00
...............GTAAGCAGTGCTTGAGCTTT..............................................................................	20	1	2.00	1.00	1.00	0.00	0.00	0.00
.........................................................................AGCGCAATTAACTGTTT----GCAGT..............	22	1	2.00	0.00	2.00	0.00	0.00	0.00
.................AAGCAGTGCTTGAGCTTA..............................................................................	18	1	2.00	2.00	0.00	0.00	0.00	0.00
.........................................................................AGCTCAATTAACTGTTT----GCAG...............	21	1	2.00	0.00	2.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----...................	19	1	2.00	0.00	2.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGA..............	24	1	2.00	2.00	0.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGAGCTAA..............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----TC.................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGCTT----GCC................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
...............GTAAGCGGTGCTTGAGCTTT..............................................................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
........................................................................AAGCTCAATTAACTGTTT----CCAGT..............	23	1	1.00	0.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCGCAATTAACTGATT----GC.................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
........................................................................AAGCTCAATTAACTGTTT----GCAGTC.............	24	1	1.00	1.00	0.00	0.00	0.00	0.00
........................................................................AAGCTCAATTAACTGTTT----GC.................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGAGATTA..............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GTAAGCAGTGCTCGAGCTT...............................................................................	19	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGAACTTA..............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
.....................AGTGCTTGAGCTTATTC--TCT......................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
...............GTATGCAGTGCTTGAGCTTAT.............................................................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GTAAGCAGAGCTTGAGCTTA..............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTAT----GCA................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTCTGT----G..................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGAGCTTG..............................................................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
.........................................................................AGGTCAATTAACTGTTT----GCAGT..............	22	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GTAAGTAGTGCTTGAGCTT...............................................................................	19	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GTAAGCAGTGCTGGAGCT................................................................................	18	1	1.00	0.00	0.00	1.00	0.00	0.00
.........................................................................AGCTCAATTAACTATTT----GCAGC..............	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.........................................................................AGCTCAATTACCTGTTT----GCAGT..............	22	1	1.00	0.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----ACA................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
...............GTAAGCAGTTCTTGAGCTTA..............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGAGTTT...............................................................................	19	1	1.00	1.00	0.00	0.00	0.00	0.00
........................................................................AAGCTCAATTAACTGTTT----GCA................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
.........................................................................AGCTCAATTAACTGTCT----GCAGT..............	22	1	1.00	0.00	1.00	0.00	0.00	0.00
...............GGAAGCAGTGCTTGAGCGTA..............................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
...............GTAAGCAGGGCTTGAGCTTA..............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GTAAGCAGCGCTTGAGCTTA..............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGAGCTGA..............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
.........................................................................AGCTCAATTAGCTGTTT----GCAGT..............	22	1	1.00	0.00	1.00	0.00	0.00	0.00
...........................................................................CTCAATTAACTGTTT----GCAG...............	19	1	1.00	0.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACAGTTT----GCA................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
........................................................................AAGCTCAATTAACTGTTT----GCAG...............	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTCT----GCA................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
......................GTGCTTGAGCTTATTC--TCT......................................................................	19	1	1.00	0.00	0.00	1.00	0.00	0.00
...............GTAAGCAGTGCTTGAGCTTAA.............................................................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCT................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----C..................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCAGT..............	24	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGAGCTTAT.............................................................................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
...............GTAAGCAGTGCTTGAGCTA...............................................................................	19	1	1.00	1.00	0.00	0.00	0.00	0.00

droMoj3

ATGAGTCCATGAAATGTAAGCAGTGTTTGAACTAAATC--TCTG-GCT-ACT--TGGCC---GTATATTGATAAGCTCAACTAACTGTTT----GCAGCGGACACCTATTTGG	Size	Hit Count	Total Norm	V110 Male body	V056 Unknown	V049 Head	V041 Embryo
.......................................................................TAAGCTCAACTAACTGTTT----GCAGT..............	24	1	30.00	13.00	9.00	4.00	4.00
.......................................................................TAAGCTCAACTAACTGTTT----GC.................	21	1	26.00	3.00	12.00	11.00	0.00
.......................................................................TAAGCTCAACTAACTGTTT----GCA................	22	1	23.00	4.00	9.00	6.00	4.00
.......................................................................TAAGCTCAACTAACTGTTT----GCAG...............	23	1	21.00	5.00	7.00	3.00	6.00
.......................................................................TAAGCTCAACTAACTGTTT----G..................	20	1	16.00	3.00	4.00	8.00	1.00
...............GTAAGCAGTGTTTGAACTAAATC--.........................................................................	23	1	14.00	14.00	0.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTAA..............................................................................	20	1	9.00	9.00	0.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTAAA.............................................................................	21	1	4.00	4.00	0.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTAAAT............................................................................	22	1	4.00	4.00	0.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTAAATC--TCT......................................................................	26	1	3.00	3.00	0.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTAAATC--T........................................................................	24	1	2.00	2.00	0.00	0.00	0.00
...............GTAAGCAGTGTTTGAACTA...............................................................................	19	1	2.00	1.00	0.00	0.00	1.00
...............GTAAGCAGTGTTTGAACTAAATC--TCTG-G...................................................................	28	1	2.00	2.00	0.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GC.................	21	1	2.00	0.00	0.00	2.00	0.00
.......................................................................TAAGCTCAACTACCTGTTT----G..................	20	1	2.00	0.00	1.00	1.00	0.00
.....................................................................................................ACACCCATTTGG	18	4	0.25	0.00	0.25	0.00	0.00
......................................................................CTAAGCTCAACTAACTGTTT----GCA................	23	1	1.00	0.00	0.00	0.00	1.00
.........................................................................AGCTCAACTAACTGTTT----GCAGT..............	22	1	1.00	1.00	0.00	0.00	0.00
......................................................................ATAAGCTCAACTAACTGTTT----GC.................	22	1	1.00	0.00	1.00	0.00	0.00
...............................................................TATATTGATAAGCTCAACTAACTGT.........................	25	1	1.00	1.00	0.00	0.00	0.00
...............GTAAGCAGAGTTTGAACTAAATC--TCT......................................................................	26	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCGACTGACTGTTT----GCAG...............	23	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAACCTCAACTAACTGTTT----G..................	20	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAACTAACTGTTT----GCAT...............	23	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAACTAACTGTTT----GT.................	21	1	1.00	0.00	0.00	1.00	0.00
...............GTAAGCAGTGTTTGAACTAAATC--TC.......................................................................	25	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAACTAACTGTTT----GA.................	21	1	1.00	0.00	1.00	0.00	0.00
.......CATGAAATGTAAGCAGTGTTTGAA..................................................................................	24	1	1.00	1.00	0.00	0.00	0.00
...............................................................TATATTGATAAGCTCAACTAACTGTT........................	26	1	1.00	1.00	0.00	0.00	0.00
............................................................................TCAACTAACTGTTT----GCAGT..............	19	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAACTAACTGTTT----GCAGC..............	24	1	1.00	0.00	1.00	0.00	0.00
.......................................................................TAAGCTCAATTAACTGTTT----GCA................	22	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAACTAACTGTTT----TCA................	22	1	1.00	0.00	0.00	1.00	0.00
...................................................................TTGATAAGCTCAACTAACTGT.........................	21	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCGCAACCAACTGTTT----GCA................	22	1	1.00	0.00	0.00	0.00	1.00
.......................................................................TAAGCTCAACTAACTGCTT----CC.................	21	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAAGCTCAACTAACTGTTT----GCAGTC.............	25	1	1.00	1.00	0.00	0.00	0.00
.......................................................................TAAGCTCAACCATCTGTTT----GCA................	22	1	1.00	0.00	0.00	1.00	0.00
...............GTAAGAAGTGTTTGAACTAA..............................................................................	20	1	1.00	1.00	0.00	0.00	0.00

droGri2

GCGAATCAATACAATGTAAGCAGTGTTTGAACTGAATA--TCTG-GTTA--T--CCGACTTCATATACTGATAAGCTCAATTCACTGTTT----GCAGCGGATGGCGTCTTCT	Size	Hit Count	Total Norm	V109 Male body
.......................................................................TAAGCTCAATTCACTGTTT----GCAGT..............	24	1	4.00	4.00
.......................................................................TAAGCTCAATTCACTGTTT----GCA................	22	1	2.00	2.00
........................................................................AAGCTCAATTCACTGTTT----GCAGT..............	23	1	1.00	1.00
.......................................................................TAAGCTCAATTCACTGTTT----G..................	20	1	1.00	1.00
.......................................................................TAAGCTCAATTCACTGTTT----GC.................	21	1	1.00	1.00
......................................................................ATAAGCTCAATTCACTGTTT----GCAGT..............	25	1	1.00	1.00

Generated: 04/20/2012 at 05:35:05 EDT

dme-mir-1007

chrX:21167412-21167476 -

Known_mirbase

mirtron

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