dme-mir-964- Best orthologs

dme-mir-964	chr2L:5642102-5642201 +	Known_mirbase
[View on miRBase]	[View on UCSC Genome Browser {Cornell Mirror}]	intron

Legend:

   mature strand at position 5642127-5642148
   star strand at position 5642167-5642187
   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	chr2L:5642087-5642216 +		1	TCTAGTTGGTGATA-----------------------------CCAATA-ACATATTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTATGTT--TTTGATGTTTAAGTTAAAAGCCTCTGTTCTAAGACAATTTGATGATCAAAACA------GCCGG-A----GAAA
droSim1	chr2L:5435151-5435306 +	LASTZ	1	TCTAGTGGGTA-AATCCATGTG---GT------TATG-ACAAGTCAATCAAAATCTTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTGTGTT--TTTAATGTTTAAGTTAAAAGCCACTGTTCTAAGACAATTTGATGATCAAAACTTCAACTTCATT-T---TGTAA
droSec1	super_5:3719805-3719957 +	LASTZ	1	TCTAGTGGGTA-AATCCATGTG---GT------TATG-ATAAGTCAATCAAAATCTTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTGTGTT--TTTAATGTTTAAGTTAAAAGCCACTGTTCTAAGACAATTTGATGATCAAAACC------ACCTG-ACAAAAAAA
droYak2	chr2L:13551054-13551191 -	LASTZ	1	TCAAGTT----ATATCC----------------TATG-ATCAATCAATG-AAATCTTGGTCCCACTTGTCTTAGAATAGGGGAGCTTAACTTATGTA--TATCATGTATAAGTTAAGAACCTTTATTCTAAGACAATTCGACTACAAAATCA------ACTGA-A----AAAC
droEre2	scaffold_4929:5730483-5730617 +	LASTZ	1	TCTAGTTGGTTACATCCTTGCG---TT------AGTG-ATCAATCAATA-ACGTTTTGGTCCCACTTGTCTTAGAATAGGGGAGCTTAACTTGTGTG--TGTTATGCTTAAGTTAAGAGCCTTTATTCTAAGTCAATTCGACTGCCAA-------------------------
droEug1	scf7180000409063:318437-318580 +	LASTZ	4	CTCGAA-AGTAATACTCGAGCA---ATACCAGTAAT---------AA--TAATCCGAGGTCAAACTTGTCTTAGAATAGGGGAGCTTAACTTATGTA--CGCAATGTTTAAGTT-AGATCCTTTTTTCTAAGATAATTCGGCTGTCAGAACA------ACATG-C----TATT
droBia1	scf7180000302422:3831769-3831919 +	LASTZ	4	TCTCAATAGCTATG--CATGCTGCAAT------GGCG-ATAAACTGATAAAACCGACTGTCAAACTTGTCTTAGAATAGGGGAGCTTAACTTATGTG--TGCCGATTTTAAGTTAAGAGCCTTTTTTCTAAGATAATCCGACTATCAAAACA------ACACG-C----TAAC
droTak1	scf7180000415871:386454-386601 +	LASTZ	4	CCTCCTAAGTTATG--CATGCT---AT------TGCG-CCAAATTAATATAAACCGAGGTCTAACTTGTCTTAGAATAGGGGAGCTTAACTTATGTA--GGTCATGTTTAAGTTAAGAGCCTTTTTTCTAAGATAATTCGACTATCGTAACA------ACGTG-C----TGAT
droEle1	scf7180000490753:31695-31835 +	LASTZ	4	CCAACAAAGTAACTA-----TC---GT------TTTG-TCAAATTATTTAAACCAGAGGTCATACTTGCCTTAGAATAGGGGAGCTTGACTTATGTG--CGTTATGTTTAAGTTAAGAGCCTTAATTCTAAGATAATTCGACTATCAAAACA------GCATG-C--------
droRho1	scf7180000778253:32389-32536 -	LASTZ	4	CCACCATAATA-AATTATT------GT------GTTG-CCAAATTATTCAAGCCCAAGGTCATACTTGCCTTAGAATAGGGGAGCTTAACTTATGTT--CGTTGTGTTTAAGTTAAGAGCCTTGATTCTAAGATAATTCGACCATCAAAACA------GCATG-CT--AAATA
droFic1	scf7180000453932:196450-196600 -	LASTZ	4	TCTAATTAAAA-TAA-TCAGTCCCAGT------AATG-AGAATCCATCTCAGCCCAATGGCGAACTTGTCTTAGAATAGGGGAGCTTAACTTGGA-A--TCTTGTGTTGAAGTTAAGAGCCATAATTCTAAGACAATTCGACCATAAAATCA------ACAATGA----GAGT
droKik1	scf7180000302389:430178-430312 -	LASTZ	4	TTGAGGTGGAAAAG------------------------GTAATTCAGAC-AGAGATAAGTCAGACTTGTCTTAGAATAGGGGAGCTTAACTTATGTG--GCAGATATTTAAGTTAAGAGCCTTAATTCTAAGACAAAGCGACTGGAAAAGCA------GCATT-A----AAGG
droAna3	scaffold_12916:11085546-11085681 +	LASTZ	1	AAGAATACGAG-TGTTCGCGGG------------ATG-AGC----AT-C-GAATCAAAGTCAAACTTGTTTTAGAATAGGGGAGCTTAACTTATTGGAGAGTTGATATTAAGTTAAGATCCCTAATTCTAAGATAATGTGACCATTAATGCA------ACGT-----------
droBip1	scf7180000396572:743323-743441 +	LASTZ	4	TCATCGGAAAG-----------------------------AATCCA------TCAAAAGTCACACTTGTTTTAGAATAGGGGAGCTTGACTTGTTAAAGAGTTGATATAAAGTTAAGATCCTTTATTCTAAGATAATGTGACCATTATAGCA------AC-------------
dp4	chr4_group4:3181498-3181623 -	LASTZ	1	AGGGATCC------------------C------CGTG-CCAA-----------ATAGAGCCAAAACTATCTTAGATCGAAGGTTCCTGGCTTACAGG--GATTTGATGTAAGTTAAGAACCTCCGCTCTAAGCTAGTATGGCTATCATC--A---ACGGCCCT-G----AAAG
droPer1	super_10:2200424-2200549 -	LASTZ	1	AGGGATCC------------------C------CGTG-CCAA-----------ATAGAGCCAAAATTATCTTAGATCGAAGGTTCCTGGCTTACAGG--GATTTGATGTAAGTTAAGAACCTCCGCTCTAAGCTAGTATGGCTATCATC--A---ACGGCCCT-G----AAAG
droWil1	scaffold_180708:8624927-8625071 -	LASTZ	1	TTTAAGCCCAA-CACATTTGTT---GT--C---TGTG-T-C----AGTT--GAACAAGGTCAAACTTGTCTTAGAATAGGGGAGCTTAACTTATATT--GTTTTGCTTAAAGTTAAGAGCCTCAATTCTAAGATAATGCGACTATCACCGCA------GCAGT-TC--AGATA
droVir3	scaffold_12963:3616457-3616573 +	LASTZ	1	TTCAAAAG-TT---TTCATA--------------TTG-AAAATACA--------TTAAGTTTAACTTATCTTAGAATAGGGGAGCTTAACTT-TGTA--TG-AACATTTAAGCTAAGAGCCTCAATTCTTAGATAATGCGACTAACAA-------------------------
droMoj3	scaffold_6500:14019483-14019608 +	LASTZ	1	GATATATGATGATGA-TT--TTCCAAT------TGTGATGAAATCA--------TTGAGTTCAACTTATCTTAGAATAGGGGAGCTTAACTTAAT----CTGAACACTCAAGCTAAGAGCCTCGATTCTTCGATAATGCGACTAACA--------------------------
droGri2	scaffold_15252:3148300-3148427 +	LASTZ	1	TTCAGTTGATTAGA------------------------AGAGTGCA--------TTATGTCAAACTTATCTTAGAATAGGGGAGCTTAACTTTTATCATATTAGCGCTCGAGCTAAGATCCTCAATTCTTGGATAAGGCGACTAGCAA--CT------GCAGT-A----AAAA

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	TCTAGTTGGTGATA-----------------------------CCAATA-ACATATTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTATGTT--TTTGATGTTTAAGTTAAAAGCCTCTGTTCTAAGACAATTTGATGATCAAAACA------GCCGG-A----GAAA
droSim1	TCTAGTGGGTA-AATCCATGTG---GT------TATG-ACAAGTCAATCAAAATCTTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTGTGTT--TTTAATGTTTAAGTTAAAAGCCACTGTTCTAAGACAATTTGATGATCAAAACTTCAACTTCATT-T---TGTAA
droSec1	TCTAGTGGGTA-AATCCATGTG---GT------TATG-ATAAGTCAATCAAAATCTTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTGTGTT--TTTAATGTTTAAGTTAAAAGCCACTGTTCTAAGACAATTTGATGATCAAAACC------ACCTG-ACAAAAAAA
droYak2	TCAAGTT----ATATCC----------------TATG-ATCAATCAATG-AAATCTTGGTCCCACTTGTCTTAGAATAGGGGAGCTTAACTTATGTA--TATCATGTATAAGTTAAGAACCTTTATTCTAAGACAATTCGACTACAAAATCA------ACTGA-A----AAAC
droEre2	TCTAGTTGGTTACATCCTTGCG---TT------AGTG-ATCAATCAATA-ACGTTTTGGTCCCACTTGTCTTAGAATAGGGGAGCTTAACTTGTGTG--TGTTATGCTTAAGTTAAGAGCCTTTATTCTAAGTCAATTCGACTGCCAA-------------------------
droEug1	CTCGAA-AGTAATACTCGAGCA---ATACCAGTAAT---------AA--TAATCCGAGGTCAAACTTGTCTTAGAATAGGGGAGCTTAACTTATGTA--CGCAATGTTTAAGTT-AGATCCTTTTTTCTAAGATAATTCGGCTGTCAGAACA------ACATG-C----TATT
droBia1	TCTCAATAGCTATG--CATGCTGCAAT------GGCG-ATAAACTGATAAAACCGACTGTCAAACTTGTCTTAGAATAGGGGAGCTTAACTTATGTG--TGCCGATTTTAAGTTAAGAGCCTTTTTTCTAAGATAATCCGACTATCAAAACA------ACACG-C----TAAC
droTak1	CCTCCTAAGTTATG--CATGCT---AT------TGCG-CCAAATTAATATAAACCGAGGTCTAACTTGTCTTAGAATAGGGGAGCTTAACTTATGTA--GGTCATGTTTAAGTTAAGAGCCTTTTTTCTAAGATAATTCGACTATCGTAACA------ACGTG-C----TGAT
droEle1	CCAACAAAGTAACTA-----TC---GT------TTTG-TCAAATTATTTAAACCAGAGGTCATACTTGCCTTAGAATAGGGGAGCTTGACTTATGTG--CGTTATGTTTAAGTTAAGAGCCTTAATTCTAAGATAATTCGACTATCAAAACA------GCATG-C--------
droRho1	CCACCATAATA-AATTATT------GT------GTTG-CCAAATTATTCAAGCCCAAGGTCATACTTGCCTTAGAATAGGGGAGCTTAACTTATGTT--CGTTGTGTTTAAGTTAAGAGCCTTGATTCTAAGATAATTCGACCATCAAAACA------GCATG-CT--AAATA
droFic1	TCTAATTAAAA-TAA-TCAGTCCCAGT------AATG-AGAATCCATCTCAGCCCAATGGCGAACTTGTCTTAGAATAGGGGAGCTTAACTTGGA-A--TCTTGTGTTGAAGTTAAGAGCCATAATTCTAAGACAATTCGACCATAAAATCA------ACAATGA----GAGT
droKik1	TTGAGGTGGAAAAG------------------------GTAATTCAGAC-AGAGATAAGTCAGACTTGTCTTAGAATAGGGGAGCTTAACTTATGTG--GCAGATATTTAAGTTAAGAGCCTTAATTCTAAGACAAAGCGACTGGAAAAGCA------GCATT-A----AAGG
droAna3	AAGAATACGAG-TGTTCGCGGG------------ATG-AGC----AT-C-GAATCAAAGTCAAACTTGTTTTAGAATAGGGGAGCTTAACTTATTGGAGAGTTGATATTAAGTTAAGATCCCTAATTCTAAGATAATGTGACCATTAATGCA------ACGT-----------
droBip1	TCATCGGAAAG-----------------------------AATCCA------TCAAAAGTCACACTTGTTTTAGAATAGGGGAGCTTGACTTGTTAAAGAGTTGATATAAAGTTAAGATCCTTTATTCTAAGATAATGTGACCATTATAGCA------AC-------------
dp4	AGGGATCC------------------C------CGTG-CCAA-----------ATAGAGCCAAAACTATCTTAGATCGAAGGTTCCTGGCTTACAGG--GATTTGATGTAAGTTAAGAACCTCCGCTCTAAGCTAGTATGGCTATCATC--A---ACGGCCCT-G----AAAG
droPer1	AGGGATCC------------------C------CGTG-CCAA-----------ATAGAGCCAAAATTATCTTAGATCGAAGGTTCCTGGCTTACAGG--GATTTGATGTAAGTTAAGAACCTCCGCTCTAAGCTAGTATGGCTATCATC--A---ACGGCCCT-G----AAAG
droWil1	TTTAAGCCCAA-CACATTTGTT---GT--C---TGTG-T-C----AGTT--GAACAAGGTCAAACTTGTCTTAGAATAGGGGAGCTTAACTTATATT--GTTTTGCTTAAAGTTAAGAGCCTCAATTCTAAGATAATGCGACTATCACCGCA------GCAGT-TC--AGATA
droVir3	TTCAAAAG-TT---TTCATA--------------TTG-AAAATACA--------TTAAGTTTAACTTATCTTAGAATAGGGGAGCTTAACTT-TGTA--TG-AACATTTAAGCTAAGAGCCTCAATTCTTAGATAATGCGACTAACAA-------------------------
droMoj3	GATATATGATGATGA-TT--TTCCAAT------TGTGATGAAATCA--------TTGAGTTCAACTTATCTTAGAATAGGGGAGCTTAACTTAAT----CTGAACACTCAAGCTAAGAGCCTCGATTCTTCGATAATGCGACTAACA--------------------------
droGri2	TTCAGTTGATTAGA------------------------AGAGTGCA--------TTATGTCAAACTTATCTTAGAATAGGGGAGCTTAACTTTTATCATATTAGCGCTCGAGCTAAGATCCTCAATTCTTGGATAAGGCGACTAGCAA--CT------GCAGT-A----AAAA

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

TCTAGTGGGTA-AATCCATGTG---GT------TATG-ACAAGTCAATCAAAATCTTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTGTGTT--TTTAATGTTTAAGTTAAAAGCCACTGTTCTAAGACAATTTGATGATCAAAACTTCAACTTCATT-T---TGTAA	Size	Hit Count	Total Norm	V044 Embryo	M023 Head	M024 Male body	M025 Embryo
................................................................................................................TTAAAAGCCACTGTTCTAAGAC.......................................	22	1	280.00	1.00	4.00	250.00	25.00
......................................................................TTAGAATAGGGGAGCTTAACT..................................................................................	21	1	165.00	2.00	0.00	151.00	12.00
......................................................................TTAGAATAGGGGAGCTTAACTT.................................................................................	22	1	98.00	2.00	0.00	94.00	2.00
......................................................................TTAGAATAGGGGAGCTTAACTTT................................................................................	23	1	15.00	0.00	0.00	15.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAC...................................................................................	20	1	15.00	0.00	0.00	15.00	0.00
.................................................................................................................TAAAAGCCACTGTTCTAAGAC.......................................	21	1	10.00	0.00	0.00	10.00	0.00
....................................................ATCTTGGTCCAACTTGCC.......................................................................................................	18	1	8.00	0.00	0.00	5.00	3.00
......................................................................TTAGAATAGGGGAGCTTAACC..................................................................................	21	1	6.00	0.00	0.00	6.00	0.00
................................................................................................................TTAAAAGCCACTGTTCTAAGA........................................	21	1	5.00	1.00	0.00	3.00	1.00
................................................................................................................TTAAAAGCCACTGTTCTAAAAC.......................................	22	1	4.00	0.00	0.00	4.00	0.00
...............................................................................................................GTTAAAAGCCACTGTTCTAAG.........................................	21	1	4.00	0.00	0.00	4.00	0.00
...............................................................................................................GTTAAAAGCCACTGTTCTAAGA........................................	22	1	4.00	0.00	0.00	4.00	0.00
................................................................................................................TTAAAAGCCACTGTTCTAAGGC.......................................	22	1	3.00	0.00	1.00	2.00	0.00
.................................................................................................................TAAAAGCCACTGTTCTAAGACA......................................	22	1	3.00	0.00	0.00	3.00	0.00
................................................................................................................TTAAAAGCCACTGTTCTAAGACA......................................	23	1	2.00	0.00	0.00	2.00	0.00
......................................................................TTAGAATAxGGGAGCTTAACT..................................................................................	20	1	2.00	0.00	0.00	2.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTA.................................................................................	22	1	2.00	0.00	0.00	2.00	0.00
................................................................................................................TTAAAAGCCACTGTTCTAAGACT......................................	23	1	2.00	0.00	0.00	2.00	0.00
................................................................................................................TTAAAACCCACTGTTCTAAGAC.......................................	22	1	2.00	0.00	0.00	2.00	0.00
......................................................................ATAGAATAGGGGAGCTTAAC...................................................................................	20	1	1.00	0.00	0.00	1.00	0.00
......................................................................TTAGAATACGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00
...............................................................................................................GTTAAAAGCCACTGTTTTAAGA........................................	22	1	1.00	0.00	1.00	0.00	0.00
....................................................ATCGTGGTCCAACTTGCC.......................................................................................................	18	1	1.00	1.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAGCTT.................................................................................	22	1	1.00	0.00	0.00	1.00	0.00
.................................................................................................................TAAAAGCCACTGTTCTAAGACT......................................	22	1	1.00	0.00	0.00	1.00	0.00
...................................................AATCTTGGTCCAACTTGCC.......................................................................................................	19	1	1.00	1.00	0.00	0.00	0.00
.................................................................................................................TAAAAGCCACTGTTCTAAGACC......................................	22	1	1.00	1.00	0.00	0.00	0.00
......................................................................TTAGAATAGTGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00
................................................................................................................TTAAAAGCCACTGGTCTAAGAC.......................................	22	1	1.00	0.00	0.00	1.00	0.00
...................................................AATCTTGGTCCAACTAGCC.......................................................................................................	19	1	1.00	1.00	0.00	0.00	0.00
......................................................................TTAGAATxxGGGAGCTTAACT..................................................................................	19	1	1.00	0.00	0.00	1.00	0.00
................................................................................................................TTAAAAGCCACTGTTCTAAGG........................................	21	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACT..................................................................................	20	1	1.00	0.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGGGGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	1.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACG..................................................................................	20	1	1.00	0.00	0.00	1.00	0.00
................................................................................................................TTAAAAGCCACTGTTCTAAGT........................................	21	1	1.00	0.00	0.00	1.00	0.00
......................................................................TTGGAATAGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGTAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGAGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00
................................................................................................................TTAAAAGCCACAGTTCTAAGACA......................................	23	1	1.00	0.00	0.00	1.00	0.00
................................................................................................................TTAAAAGCCACTGTTCTAAGACC......................................	23	1	1.00	0.00	0.00	1.00	0.00

droSec1

TCTAGTGGGTA-AATCCATGTG---GT------TATG-ATAAGTCAATCAAAATCTTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTGTGTT--TTTAATGTTTAAGTTAAAAGCCACTGTTCTAAGACAATTTGATGATCAAAACC------ACCTG-ACAAAAAAA	Size	Hit Count	Total Norm	V113 Male body	V114 Embryo	V115 Head
......................................................................TTAGAATAGGGGAGCTTAACTT.................................................................................	22	1	551.00	480.00	44.00	27.00
......................................................................TTAGAATAGGGGAGCTTAACT..................................................................................	21	1	534.00	480.00	23.00	31.00
......................................................................TTAGAATAGGGGAGCTTAAC...................................................................................	20	1	47.00	43.00	2.00	2.00
......................................................................TTAGAATAGGGGAGCTTAACTTT................................................................................	23	1	41.00	36.00	4.00	1.00
....................................................ATCTTGGTCCAACTTGCC.......................................................................................................	18	1	34.00	0.00	33.00	1.00
......................................................................TTAGAATAGGGGAGCTTACCT..................................................................................	21	1	7.00	7.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAA....................................................................................	19	1	7.00	7.00	0.00	0.00
...............................................................................................................GTTAAAAGCCACTGTTCTAAGA........................................	22	1	7.00	4.00	2.00	1.00
......................................................................TTAGAATAGGGGAGCTTACCTT.................................................................................	22	1	5.00	5.00	0.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTG................................................................................	22	1	4.00	4.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTTT...............................................................................	24	1	4.00	3.00	1.00	0.00
...............................................................................................................GTTAAAAGCCACTGTTCTAAG.........................................	21	1	3.00	3.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAGCTT.................................................................................	22	1	2.00	2.00	0.00	0.00
......................................................................TTCGAATAGGGGAGCTTAACTT.................................................................................	22	1	2.00	2.00	0.00	0.00
......................................................................TTAGAATAxGGGAGCTTAACT..................................................................................	20	1	2.00	2.00	0.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTT.................................................................................	21	1	2.00	2.00	0.00	0.00
......................................................................TTAGAATAxGGGAGCTTAACTT.................................................................................	21	1	2.00	2.00	0.00	0.00
......................................................................TTAGAATAGGGGCGCTTAACT..................................................................................	21	1	2.00	2.00	0.00	0.00
...................................................AATCTTGGTCCAACTTGCC.......................................................................................................	19	1	2.00	0.00	2.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACA..................................................................................	21	1	2.00	2.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTC.................................................................................	22	1	2.00	2.00	0.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACT..................................................................................	20	1	2.00	2.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTA................................................................................	23	1	2.00	2.00	0.00	0.00
......................................................................TTAGAATCGGGGAGCTTAACT..................................................................................	21	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGTTTAACTT.................................................................................	22	1	1.00	0.00	1.00	0.00
........................................................................AGAATAGGGGAGCTTAACT..................................................................................	19	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTATCTT.................................................................................	22	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGAAGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	1.00
......................................................................TTAGAGTAGGGGAGCTTAACTT.................................................................................	22	1	1.00	1.00	0.00	0.00
...............................................................................................................GTTAAAAGCCACTGTTCTCAG.........................................	21	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTTACT..................................................................................	21	1	1.00	1.00	0.00	0.00
....................................................................................................................................ACAAGTTGATxATCAAAAC......................	18	1	1.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAT...................................................................................	20	1	1.00	1.00	0.00	0.00
....................................................ATCTTGGTTCAACTTGCC.......................................................................................................	18	1	1.00	0.00	1.00	0.00
......................................................................TTAGAATAGGCGAGCTTAACT..................................................................................	21	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGCAGCTTAACT..................................................................................	21	1	1.00	0.00	1.00	0.00
......................................................................TTAGAATAGCGGAGCTTAACT..................................................................................	21	1	1.00	1.00	0.00	0.00
......................................................................TTAAAATAGGGGAGCTTAACT..................................................................................	21	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTCAACTT.................................................................................	22	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGCAGCTTAACTT.................................................................................	22	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTATCT..................................................................................	21	1	1.00	1.00	0.00	0.00
....................................................ATCTTGGTCCAACTTGCT.......................................................................................................	18	1	1.00	0.00	1.00	0.00
......................................................................TTAGAACAGGGGAGCTTAACT..................................................................................	21	1	1.00	1.00	0.00	0.00
..........................................................................AATAGGGGAGCTTAACTTT................................................................................	19	1	1.00	1.00	0.00	0.00
......................................................................CTAGAGTAGGGGAGCTTAACT..................................................................................	21	1	1.00	1.00	0.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTT................................................................................	22	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGTTTAACT..................................................................................	21	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCCTAACTT.................................................................................	22	1	1.00	1.00	0.00	0.00
................................................................................................................TTAAAAGCCACTGTTCTAAGA........................................	21	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTGTG..............................................................................	25	1	1.00	1.00	0.00	0.00
..................................................AAATCTTGGTCCAACTTGCC.......................................................................................................	20	1	1.00	0.00	1.00	0.00
.......................................................................TAGAATAGGGGAGCTTAAATTG................................................................................	22	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTAAACTTT................................................................................	23	1	1.00	1.00	0.00	0.00
..........A-AATxCATGTG---GT------TATG-GT.....................................................................................................................................	18	1	1.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACCT.................................................................................	22	1	1.00	1.00	0.00	0.00
.........................................................................................................................................TTGATGCTCAAAACC------AGCT...........	19	1	1.00	0.00	1.00	0.00
......................................................................TAAGAATAGGGGAGCTTAA....................................................................................	19	1	1.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGATCTTAACTT.................................................................................	22	1	1.00	0.00	1.00	0.00
...........................................................................................................................................GATGATCACAACG------ACCTG-.........	18	1	1.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGTAGCTTAACT..................................................................................	21	1	1.00	1.00	0.00	0.00

droYak2

TCAAGTT----ATATCC----------------TATG-ATCAATCAATG-AAATCTTGGTCCCACTTGTCTTAGAATAGGGGAGCTTAACTTATGTA--TATCATGTATAAGTTAAGAACCTTTATTCTAAGACAATTCGACTACAAAATCA------ACTGA-A----AAAC	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
......................................................................TTAGAATAGGGGAGCTTAACT..................................................................................	21	1	501.00	0.00	4.00	465.00	12.00	20.00
......................................................................TTAGAATAGGGGAGCTTAACTT.................................................................................	22	1	419.00	1.00	2.00	400.00	5.00	11.00
......................................................................TTAGAATAGGGGAGCTTAAC...................................................................................	20	1	40.00	0.00	0.00	37.00	0.00	3.00
......................................................................TTAGAATAGGGGAGCTTAACTTT................................................................................	23	1	29.00	0.00	0.00	28.00	1.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTT.................................................................................	21	1	16.00	0.00	0.00	13.00	3.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACT..................................................................................	20	1	16.00	0.00	0.00	14.00	0.00	2.00
.......................................................................TAGAATAGGGGAGCTTAACTTA................................................................................	22	1	14.00	0.00	0.00	14.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAA....................................................................................	19	1	9.00	0.00	0.00	9.00	0.00	0.00
......................................................................TTAGAATAGGGGCGCTTAACT..................................................................................	21	1	9.00	0.00	0.00	9.00	0.00	0.00
........................................................................AGAATAGGGGAGCTTAACTTT................................................................................	21	1	7.00	0.00	0.00	7.00	0.00	0.00
......................................................................TTGGAATAGGGGAGCTTAACTT.................................................................................	22	1	5.00	0.00	1.00	4.00	0.00	0.00
......................................................................TTAGAATAGGGGTGCTTAACT..................................................................................	21	1	4.00	0.00	0.00	3.00	1.00	0.00
......................................................................TTGGAATAGGGGAGCTTAACT..................................................................................	21	1	4.00	0.00	0.00	4.00	0.00	0.00
........................................................................AGAATAGGGGAGCTTAACTT.................................................................................	20	1	3.00	0.00	0.00	3.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTA.....................................................................................	18	1	3.00	0.00	0.00	0.00	2.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACTC.................................................................................	22	1	3.00	0.00	0.00	1.00	0.00	2.00
......................................................................TTAGAATAGGGGAGATTAACTT.................................................................................	22	1	2.00	0.00	0.00	2.00	0.00	0.00
........................................................................AGAATAGGGGAGCTTAACTTAT...............................................................................	22	1	2.00	0.00	0.00	2.00	0.00	0.00
......................................................................TTAGAATAxGGGAGCTTAACT..................................................................................	20	1	2.00	0.00	0.00	1.00	0.00	1.00
...............................................................................................................GTTAAGAACCTTTATTCTAA..........................................	20	1	2.00	0.00	0.00	0.00	0.00	2.00
.......................................................................TAGAATAGGGGAGCTTAACTTT................................................................................	22	1	2.00	0.00	0.00	2.00	0.00	0.00
......................................................................TTACAATAGGGGAGCTTAACTT.................................................................................	22	1	2.00	0.00	0.00	2.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTA................................................................................	23	1	2.00	0.00	0.00	2.00	0.00	0.00
......................................................................TTAGAATAxGGGAGCTTAACTT.................................................................................	21	1	2.00	0.00	0.00	2.00	0.00	0.00
.....................................................................CTTAGAATAGGGGAGCTTAACTT.................................................................................	23	1	2.00	0.00	0.00	2.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACA..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGGGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAACAGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGACCTTAAC...................................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAAAATAGGGGAGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATGGGGGAGCTTAAC...................................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGTGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
...............................................TG-AAATCTTGGTCCCACTTGTC.......................................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTTA...............................................................................	24	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGTAGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGAGCGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
...............................................................................................................GTTAAGAACCTTTATTCT............................................	18	1	1.00	0.00	0.00	0.00	0.00	1.00
.......................................................................TTAAATAGGGGAGCTTAACTT.................................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATCGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACA..................................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGGGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGCGAGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................ATAGAATAGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAxGTGAGCTTAACT..................................................................................	20	1	1.00	0.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGACATTAACTT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGGAACTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGTGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
......................................................................TTCGAATAGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
........................................................................AGAATAGGGGAGCTTAACT..................................................................................	19	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGCGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACC..................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACTA.................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTTT...............................................................................	24	1	1.00	0.00	0.00	1.00	0.00	0.00
.........................................................................GAATAGGGGAGCTTAACTT.................................................................................	19	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTC................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATxGGGGAGCTTAACT..................................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCCTAACT..................................................................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
..............................................................................................................AGTTAAGAACCTTTATTCT............................................	19	1	1.00	0.00	1.00	0.00	0.00	0.00

droEre2

TCTAGTTGGTTACATCCTTGCG---TT------AGTG-ATCAATCAATA-ACGTTTTGGTCCCACTTGTCTTAGAATAGGGGAGCTTAACTTGTGTG--TGTTATGCTTAAGTTAAGAGCCTTTATTCTAAGTCAATTCGACTGCCAA-------------------------	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
......................................................................TTAGAATAGGGGAGCTTAACT..................................................................................	21	1	199.00	1.00	21.00	0.00	177.00
......................................................................TTAGAATAGGGGAGCTTAACTT.................................................................................	22	1	194.00	2.00	25.00	0.00	167.00
......................................................................TTAGAATAGGGGAGCTTAACTTT................................................................................	23	1	24.00	0.00	3.00	0.00	21.00
......................................................................TTAGAATAGGGGAGCTTAAC...................................................................................	20	1	11.00	0.00	0.00	0.00	11.00
...............................................................................................................GTTAAGAGCCTTTATTCTAAGT........................................	22	1	6.00	0.00	1.00	0.00	5.00
......................................................................TTAGAATAGGGGAGCTTAA....................................................................................	19	1	5.00	0.00	1.00	0.00	4.00
......................................................................TTAGAATATGGGAGCTTAACT..................................................................................	21	1	5.00	0.00	0.00	0.00	5.00
......................................................................TTAGAATATGGGAGCTTAACTT.................................................................................	22	1	4.00	0.00	0.00	0.00	4.00
................................................................................................................TTAAGAGCCTTTATTCTAAGT........................................	21	1	3.00	0.00	0.00	0.00	3.00
......................................................................TTAGAATAGTGGAGCTTAACTT.................................................................................	22	1	3.00	0.00	0.00	0.00	3.00
......................................................................TTAGAATAGTGGAGCTTAACT..................................................................................	21	1	3.00	0.00	0.00	0.00	3.00
......................................................................TTAGAATAGGGGAGCTTAAAT..................................................................................	21	1	2.00	0.00	1.00	0.00	1.00
......................................................................TTAGAATAGGGGCGCTTAACTT.................................................................................	22	1	2.00	0.00	0.00	0.00	2.00
......................................................................TTAGAATAGGTGAGCTTAACT..................................................................................	21	1	2.00	0.00	0.00	0.00	2.00
......................................................................TTAGAATAGGGGAGCTTAACTTTT...............................................................................	24	1	2.00	0.00	0.00	0.00	2.00
......................................................................TTAGAATAGGGTAGCTTAACT..................................................................................	21	1	2.00	0.00	0.00	0.00	2.00
......................................................................TTAGAATAGGTGAGCTTAACTTT................................................................................	23	1	2.00	0.00	0.00	0.00	2.00
......................................................................TTAGAATGGGGGAGCTTAACTT.................................................................................	22	1	2.00	0.00	2.00	0.00	0.00
......................................................................TTAGAATACGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGTTTAACTT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTACAATAGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAGCTT.................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
......................................................................TTATAATAGGGGAGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGACTAGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
.........................................AATGAATA-AGGTTTTGGT.................................................................................................................	18	1	1.00	0.00	0.00	0.00	1.00
...............................................................................................................GTTAAGAGCCTTTATTCTAA..........................................	20	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTGGAATAGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAAAATAGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
................................................A-ACGTTTTGGTCCAACTTGTC.......................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
.....................................................................CTTAGAATAGGGGAGCTTAACTT.................................................................................	23	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGCTCAACTT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGTAGCTTAACTTT................................................................................	23	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGGATAGGGGAGCTTACCTT.................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCATAACT..................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGATTAACTT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGATTAACT..................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
................................................................................................................TTAAGAGCCTTTATTCTAAG.........................................	20	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGTAGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAGTAGGGGAGCTTGACTT.................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
......................................................................TTAGAATGGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTCGAATAGGGGAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACA..................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
..................................................ACGTTTTGGTCCCACTTGTC.......................................................................................................	20	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGTATAGGGGAGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGCTTAAATT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGCTTA.....................................................................................	18	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGTGAGCTTAACTT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTATAATAGGGGAGCTTAACTTT................................................................................	23	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACTC.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGAAGCTTAACT..................................................................................	21	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACCT.................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACTTG................................................................................	23	1	1.00	0.00	0.00	0.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACTTA................................................................................	23	1	1.00	0.00	0.00	0.00	1.00
...................................................CGTTTTGGTCCCACTTGTC.......................................................................................................	19	1	1.00	0.00	0.00	0.00	1.00

droEug1

CTCGAA-AGTAATACTCGAGCA---ATACCAGTAAT---------AA--TAATCCGAGGTCAAACTTGTCTTAGAATAGGGGAGCTTAACTTATGTA--CGCAATGTTTAAGTT-AGATCCTTTTTTCTAAGATAATTCGGCTGTCAGAACA------ACATG-C----TATT

Size

Hit Count

Total Norm

droBia1

TCTCAATAGCTATG--CATGCTGCAAT------GGCG-ATAAACTGATAAAACCGACTGTCAAACTTGTCTTAGAATAGGGGAGCTTAACTTATGTG--TGCCGATTTTAAGTTAAGAGCCTTTTTTCTAAGATAATCCGACTATCAAAACA------ACACG-C----TAAC

Size

Hit Count

Total Norm

droTak1

CCTCCTAAGTTATG--CATGCT---AT------TGCG-CCAAATTAATATAAACCGAGGTCTAACTTGTCTTAGAATAGGGGAGCTTAACTTATGTA--GGTCATGTTTAAGTTAAGAGCCTTTTTTCTAAGATAATTCGACTATCGTAACA------ACGTG-C----TGAT

Size

Hit Count

Total Norm

droEle1

CCAACAAAGTAACTA-----TC---GT------TTTG-TCAAATTATTTAAACCAGAGGTCATACTTGCCTTAGAATAGGGGAGCTTGACTTATGTG--CGTTATGTTTAAGTTAAGAGCCTTAATTCTAAGATAATTCGACTATCAAAACA------GCATG-C--------

Size

Hit Count

Total Norm

droRho1

CCACCATAATA-AATTATT------GT------GTTG-CCAAATTATTCAAGCCCAAGGTCATACTTGCCTTAGAATAGGGGAGCTTAACTTATGTT--CGTTGTGTTTAAGTTAAGAGCCTTGATTCTAAGATAATTCGACCATCAAAACA------GCATG-CT--AAATA

Size

Hit Count

Total Norm

droFic1

TCTAATTAAAA-TAA-TCAGTCCCAGT------AATG-AGAATCCATCTCAGCCCAATGGCGAACTTGTCTTAGAATAGGGGAGCTTAACTTGGA-A--TCTTGTGTTGAAGTTAAGAGCCATAATTCTAAGACAATTCGACCATAAAATCA------ACAATGA----GAGT

Size

Hit Count

Total Norm

droKik1

TTGAGGTGGAAAAG------------------------GTAATTCAGAC-AGAGATAAGTCAGACTTGTCTTAGAATAGGGGAGCTTAACTTATGTG--GCAGATATTTAAGTTAAGAGCCTTAATTCTAAGACAAAGCGACTGGAAAAGCA------GCATT-A----AAGG

Size

Hit Count

Total Norm

droAna3

AAGAATACGAG-TGTTCGCGGG------------ATG-AGC----AT-C-GAATCAAAGTCAAACTTGTTTTAGAATAGGGGAGCTTAACTTATTGGAGAGTTGATATTAAGTTAAGATCCCTAATTCTAAGATAATGTGACCATTAATGCA------ACGT-----------	Size	Hit Count	Total Norm	V105 Male body	V106 Head	V055 Unknown	V039 Embryo
......................................................................TTAGAATAGGGGAGCTTAACT..................................................................................	21	1	231.00	202.00	14.00	15.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTT.................................................................................	22	1	211.00	175.00	14.00	22.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTT................................................................................	23	1	106.00	93.00	6.00	7.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTT.................................................................................	21	1	91.00	82.00	1.00	8.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTA................................................................................	22	1	69.00	62.00	2.00	5.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTT................................................................................	22	1	65.00	61.00	1.00	3.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACT..................................................................................	20	1	47.00	46.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAC...................................................................................	20	1	33.00	29.00	2.00	2.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTTT...............................................................................	24	1	24.00	19.00	2.00	3.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTTT...............................................................................	23	1	15.00	15.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTC................................................................................	23	1	9.00	7.00	1.00	1.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTA................................................................................	23	1	7.00	5.00	2.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTCT...............................................................................	24	1	5.00	5.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGTAGCTTAACT..................................................................................	21	1	5.00	4.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAA....................................................................................	19	1	5.00	4.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTTTT..............................................................................	25	1	4.00	4.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGATCTTAACT..................................................................................	21	2	2.00	1.50	0.50	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTTT....................................................................................	19	1	4.00	4.00	0.00	0.00	0.00
......................................................................TTAGAATAGGAGAGCTTAACT..................................................................................	21	1	3.00	2.00	0.00	1.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTAT...............................................................................	23	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGATCTTAACTTT................................................................................	23	1	3.00	3.00	0.00	0.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTTTT..............................................................................	24	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACCT.................................................................................	22	1	3.00	3.00	0.00	0.00	0.00
.......................................................................TGGAATAGGGGAGCTTAACTT.................................................................................	21	1	3.00	3.00	0.00	0.00	0.00
.......................................................................TAGAATAGGTGAGCTTAACTT.................................................................................	21	1	3.00	3.00	0.00	0.00	0.00

droBip1

TCATCGGAAAG-----------------------------AATCCA------TCAAAAGTCACACTTGTTTTAGAATAGGGGAGCTTGACTTGTTAAAGAGTTGATATAAAGTTAAGATCCTTTATTCTAAGATAATGTGACCATTATAGCA------AC-------------

Size

Hit Count

Total Norm

dp4

AGGGATCC------------------C------CGTG-CCAA-----------ATAGAGCCAAAACTATCTTAGATCGAAGGTTCCTGGCTTACAGG--GATTTGATGTAAGTTAAGAACCTCCGCTCTAAGCTAGTATGGCTATCATC--A---ACGGCCCT-G----AAAG	Size	Hit Count	Total Norm	V112 Male body	V043 Embryo	V051 Head	M022 Male body
............................................................................................................TAAGTTAAGAACCTCCGCTCT............................................	21	1	162.00	139.00	0.00	14.00	9.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTA...........................................	22	1	138.00	108.00	1.00	26.00	3.00
........................................................................AGATCGAAGGTTCCTGGCTTAC...............................................................................	22	1	38.00	34.00	0.00	3.00	1.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTAA..........................................	23	1	23.00	20.00	0.00	3.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTC.............................................	20	1	17.00	14.00	0.00	3.00	0.00
........................................................................AGATCGAAGGTTCCTGGCTT.................................................................................	20	1	14.00	12.00	0.00	1.00	1.00
........................................................................AGATCGAAGGTTCCTGGCTTACA..............................................................................	23	1	12.00	12.00	0.00	0.00	0.00
........................................................................AGATCGAAGGTTCCTGGCTTA................................................................................	21	1	12.00	12.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTT...........................................	22	1	6.00	5.00	0.00	1.00	0.00
.............................................................................................................AAGTTAAGAACCTCCGCTCTA...........................................	21	1	5.00	4.00	0.00	1.00	0.00
............................................................................................................TAAGTTAAGAACCCCCGCTCTA...........................................	22	1	2.00	2.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTAAT.........................................	24	1	2.00	2.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTTT..........................................	23	1	2.00	1.00	0.00	1.00	0.00
........................................................................AGATCGAAGGTTCCTGGCTTACAC.............................................................................	24	1	1.00	1.00	0.00	0.00	0.00
..........................................................................ATCGAAGGTTCCTGGCTTAC...............................................................................	20	1	1.00	1.00	0.00	0.00	0.00
.............................................................................................................AAGTTAAGAACCTCCGCTCTAT..........................................	22	1	1.00	1.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTAATT........................................	25	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCCT...........................................	22	1	1.00	1.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTAAG.........................................	24	1	1.00	0.00	0.00	0.00	1.00
............................................................................................................TAAGTTAAGAACCTCCGATCT............................................	21	1	1.00	1.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCT..............................................	19	1	1.00	1.00	0.00	0.00	0.00
........................................................................AGGTCGAAGGTTCCTGGCTTA................................................................................	21	1	1.00	1.00	0.00	0.00	0.00
.........................................................................GATCGAAGGTTCCTGGCTTAC...............................................................................	21	1	1.00	1.00	0.00	0.00	0.00
........................................................................AGATCxAAGGTTCCTGGCTTACA..............................................................................	22	1	1.00	1.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAGCCTCCGCTCT............................................	21	1	1.00	1.00	0.00	0.00	0.00
.............................................................................................................AAGTTAGGAACCTCCGCTCTA...........................................	21	1	1.00	1.00	0.00	0.00	0.00
............................................................................................................TAAGGTAAGAACCTCCGCCCTA...........................................	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTC...........................................	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................TAAGCTAATAACCTCCGCTCT............................................	21	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGGTCTC...........................................	22	1	1.00	0.00	0.00	1.00	0.00
..........................................................................................................TGTAAGTTAAGAACCTCCGCTCTA...........................................	24	1	1.00	1.00	0.00	0.00	0.00
..........................................................................ATCGAAGGTTCCTGGCTTA................................................................................	19	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTATT.........................................	24	1	1.00	1.00	0.00	0.00	0.00

droPer1

AGGGATCC------------------C------CGTG-CCAA-----------ATAGAGCCAAAATTATCTTAGATCGAAGGTTCCTGGCTTACAGG--GATTTGATGTAAGTTAAGAACCTCCGCTCTAAGCTAGTATGGCTATCATC--A---ACGGCCCT-G----AAAG	Size	Hit Count	Total Norm	V111 Male body	V042 Embryo	V050 Head	V057 Head	M021 Embryo
............................................................................................................TAAGTTAAGAACCTCCGCTCT............................................	21	1	463.00	459.00	0.00	3.00	1.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTA...........................................	22	1	129.00	125.00	0.00	3.00	1.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTC.............................................	20	1	81.00	80.00	0.00	1.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTAA..........................................	23	1	28.00	28.00	0.00	0.00	0.00	0.00
........................................................................AGATCGAAGGTTCCTGGCTT.................................................................................	20	1	23.00	22.00	0.00	1.00	0.00	0.00
........................................................................AGATCGAAGGTTCCTGGCTTAC...............................................................................	22	1	13.00	12.00	0.00	0.00	1.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTT...........................................	22	1	10.00	9.00	0.00	1.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTAT..........................................	23	1	9.00	9.00	0.00	0.00	0.00	0.00
........................................................................AGATCGAAGGTTCCTGGCTTACA..............................................................................	23	1	6.00	6.00	0.00	0.00	0.00	0.00
........................................................................AGATCGAAGGTTCCTGGCTTA................................................................................	21	1	6.00	6.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTTT..........................................	23	1	6.00	6.00	0.00	0.00	0.00	0.00
.............................................................................................................AAGTTAAGAACCTCCGCTCT............................................	20	1	5.00	5.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAAxCTCCGCTCT............................................	20	1	3.00	3.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCT..............................................	19	1	3.00	3.00	0.00	0.00	0.00	0.00
........................................................................AGATCGAAGGTTCCTGGCTTT................................................................................	21	1	3.00	3.00	0.00	0.00	0.00	0.00
....................................................................................................................GAACGTCCGCACTAAGCT.......................................	18	1	3.00	0.00	1.00	0.00	0.00	2.00
............................................................................................................TAAGTTAGGAACCTCCGCTCTA...........................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTAAAA........................................	25	1	2.00	0.00	0.00	0.00	0.00	2.00
............................................................................................................TAAGTTAGGAACCTCCGCTCT............................................	21	1	2.00	2.00	0.00	0.00	0.00	0.00
........................................................................AGATCGAAGGTCCCTGGCTTA................................................................................	21	1	2.00	2.00	0.00	0.00	0.00	0.00
.............................................................................................................AAGTTAAGAACCTCCGCTCTA...........................................	21	1	2.00	2.00	0.00	0.00	0.00	0.00
........................................................................AGATCGAAGGTTCCTGGCT..................................................................................	19	1	2.00	2.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGATCCTCCGCTCTAT..........................................	23	1	2.00	2.00	0.00	0.00	0.00	0.00
..........................................................................ATCGAAGGTTCCTGGCTTAC...............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
..........................................................................ATCGAAGGTTCCTGGCTTAT...............................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCAGCTCT............................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGATCTAA..........................................	23	1	1.00	1.00	0.00	0.00	0.00	0.00
.........................................................................GATCGAAGGTTCCTGGCTTA................................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................................CAAGTTAAGAACCTCCGCTCTAA..........................................	23	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCACTC.............................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTAAAGAACCTCCGCTCT............................................	21	1	1.00	1.00	0.00	0.00	0.00	0.00
........................................................................AGATCGAAGGTTCCGGGCTT.................................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
........................................................................ATATCGAAGGTTCCTGGCTT.................................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAGGAACCTCCCCTCT............................................	21	1	1.00	0.00	0.00	1.00	0.00	0.00
.............................................................................................................AAGTTAAGAACCTCCGCTCTAA..........................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAGCCTCCGCTCTA...........................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................................TAAGTTAAGAACCTCCGCTCTAAA.........................................	24	1	1.00	1.00	0.00	0.00	0.00	0.00
........................................................................AGATCGAAGGTTCCTGGCTTATT..............................................................................	23	1	1.00	1.00	0.00	0.00	0.00	0.00
...........................................................................................TATTGG--GATTTGATGTAAGT............................................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
.........................................................................GATCGAAGGTTCCTGGCTT.................................................................................	19	1	1.00	1.00	0.00	0.00	0.00	0.00

droWil1

TTTAAGCCCAA-CACATTTGTT---GT--C---TGTG-T-C----AGTT--GAACAAGGTCAAACTTGTCTTAGAATAGGGGAGCTTAACTTATATT--GTTTTGCTTAAAGTTAAGAGCCTCAATTCTAAGATAATGCGACTATCACCGCA------GCAGT-TC--AGATA	Size	Hit Count	Total Norm	V117 Male body	V118 Embryo	V119 Head	M020 Head
................................................................................................................TTAAGAGCCTCAATTCTAAGAT.......................................	22	9	40.67	38.11	1.56	0.89	0.11
......................................................................TTAGAATAGGGGAGCTTAACTT.................................................................................	22	9	27.89	25.44	1.33	0.89	0.22
......................................................................TTAGAATAGGGGAGCTTAACT..................................................................................	21	9	24.56	22.11	0.56	1.56	0.33
.............................................................................................................AAGTTAAGAGCCTCAATTCTAA..........................................	22	9	8.33	5.67	2.11	0.56	0.00
......................................................................TTAGAATAGGGGAGCTTAAC...................................................................................	20	9	8.00	7.78	0.00	0.22	0.00
................................................................................................................TTAAGAGCCTCAATTCTAAGA........................................	21	9	7.89	7.78	0.00	0.11	0.00
.......................................................................TAGAATAGGGGAGCTTAACTT.................................................................................	21	9	7.11	6.67	0.33	0.11	0.00
.......................................................................TAGAATAGGGGAGCTTAACT..................................................................................	20	9	4.78	4.22	0.22	0.33	0.00
.................................................................................................................TAAGAGCCTCAATTCTAAGAT.......................................	21	9	4.44	4.00	0.11	0.33	0.00
.............................................................................................................AAGTTAAGAGCCTCAATTCT............................................	20	9	4.00	2.89	0.22	0.56	0.33
.......................................................................TAGAATAGGGGAGCTTAACTTA................................................................................	22	9	3.78	2.89	0.89	0.00	0.00
...............................................................................................................GTTAAGAGCCTCAATTCTAAGA........................................	22	9	3.22	3.00	0.11	0.11	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTAT...............................................................................	23	9	3.00	2.67	0.11	0.22	0.00
.................................................................................................................TAAGAGCCTCAATTCTAAGATA......................................	22	9	2.78	2.78	0.00	0.00	0.00
.............................................................................................................AAGTTAAGAGCCTCAATTCTA...........................................	21	9	2.22	1.89	0.33	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAA...................................................................................	20	9	2.00	2.00	0.00	0.00	0.00
.............................................................................................................AAGTTAAGAGCCTCAATTCTAAG.........................................	23	9	1.67	1.44	0.00	0.22	0.00
......................................................................TTAGAATAGGGGAGCTTAA....................................................................................	19	9	1.56	1.56	0.00	0.00	0.00
..............................................................................................................AGTTAAGAGCCTCAATTCTAAG.........................................	22	9	1.22	1.00	0.00	0.22	0.00
......................................................................TTAGAATAGGGGAGCTTAAAA..................................................................................	21	9	1.11	1.00	0.11	0.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTATA..............................................................................	24	9	1.11	1.11	0.00	0.00	0.00
...............................................................................................................GTTAAGAGCCTCAATTCTAAG.........................................	21	9	1.11	1.11	0.00	0.00	0.00
................................................................................................................TTAAGAGCCTCAATTCTAAG.........................................	20	9	1.11	1.11	0.00	0.00	0.00
................................................................................................................TTAAGAGCCTCAATTCTAAGAA.......................................	22	9	0.89	0.89	0.00	0.00	0.00
..............................................................................................................AGTTAAGAGCCTCAATTCTAA..........................................	21	9	0.89	0.33	0.22	0.33	0.00
......................................................................TTAGAATAGGGGAGCTTAACA..................................................................................	21	9	0.89	0.78	0.11	0.00	0.00
.............................................................................................................AAGTTAAGAGCCTCAATTCTAAA.........................................	23	9	0.89	0.56	0.33	0.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTT................................................................................	22	9	0.56	0.56	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTT................................................................................	23	9	0.56	0.44	0.00	0.11	0.00
......................................................................TTAGAATAGGGGAGCTTATT...................................................................................	20	9	0.44	0.33	0.00	0.11	0.00
...............................................................................................................GTTAAGAGCCTCAATTCTAAGAT.......................................	23	9	0.44	0.44	0.00	0.00	0.00
................................................................................................................TTAATAGCCTCAATTCTAAGAT.......................................	22	9	0.33	0.22	0.00	0.11	0.00
.................................................................................................................TAAGAGCCTCAATTCTAAGA........................................	20	9	0.33	0.22	0.00	0.11	0.00
.................................................................................................................TAAGAGCCTCAATTCTAAGATC......................................	22	9	0.33	0.33	0.00	0.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTTATATT--..........................................................................	26	9	0.33	0.33	0.00	0.00	0.00

droVir3

TTCAAAAG-TT---TTCATA--------------TTG-AAAATACA--------TTAAGTTTAACTTATCTTAGAATAGGGGAGCTTAACTT-TGTA--TG-AACATTTAAGCTAAGAGCCTCAATTCTTAGATAATGCGACTAACAA-------------------------	Size	Hit Count	Total Norm	V116 Male body	V053 Unknown	V047 Embryo	M027 Male body	M028 Head
......................................................................TTAGAATAGGGGAGCTTAACT..................................................................................	21	1	2661.00	2349.00	11.00	3.00	288.00	10.00
......................................................................TTAGAATAGGGGAGCTTAACTT-................................................................................	22	1	1418.00	1308.00	13.00	3.00	90.00	4.00
......................................................................TTAGAATAGGGGAGCTTAACTT-C...............................................................................	23	1	688.00	614.00	0.00	0.00	74.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTC-................................................................................	22	1	375.00	155.00	0.00	0.00	220.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACC..................................................................................	21	1	153.00	132.00	0.00	0.00	21.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAC...................................................................................	20	1	106.00	87.00	1.00	0.00	18.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTT-T...............................................................................	23	1	103.00	93.00	0.00	0.00	9.00	1.00
......................................................................TTAGAATAGGGGAGCTTAA....................................................................................	19	1	27.00	26.00	1.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTT-CT..............................................................................	24	1	18.00	18.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACCT-................................................................................	22	1	14.00	9.00	0.00	0.00	5.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTT-TC..............................................................................	24	1	10.00	9.00	0.00	0.00	1.00	0.00
......................................................................TTAGAATAxGGGAGCTTAACT..................................................................................	20	1	9.00	3.00	0.00	0.00	6.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTT-CA..............................................................................	24	1	9.00	7.00	0.00	1.00	1.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTC-T...............................................................................	23	1	8.00	6.00	0.00	0.00	2.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACCC-................................................................................	22	1	6.00	4.00	0.00	0.00	2.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACT..................................................................................	20	1	6.00	4.00	0.00	1.00	1.00	0.00
......................................................................TTAGAATAGTGGAGCTTAACT..................................................................................	21	1	6.00	2.00	0.00	0.00	4.00	0.00
.....................................................................CTTAGAATAGGGGAGCTTAACT..................................................................................	22	1	6.00	5.00	0.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACA..................................................................................	21	1	6.00	6.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACG..................................................................................	21	1	6.00	2.00	0.00	0.00	4.00	0.00
......................................................................TTAGAATAGGTGAGCTTAACT..................................................................................	21	1	6.00	2.00	0.00	0.00	4.00	0.00
.....................................................................CTTAGAATAGGGGAGCTTAACTT-................................................................................	23	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTT-CC..............................................................................	24	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAGGATAGGGGAGCTTAACT..................................................................................	21	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTAAACT..................................................................................	21	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAxGGGAGCTTAACTT-................................................................................	21	1	4.00	2.00	0.00	0.00	2.00	0.00
.......................................................................TAGAATAGGGGAGCTTAACTT-................................................................................	21	1	4.00	4.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTG-................................................................................	22	1	4.00	4.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGGGCTTAACT..................................................................................	21	1	4.00	4.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTT-TT..............................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAATT-C...............................................................................	23	1	3.00	2.00	0.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAA...................................................................................	20	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGATCTTAACT..................................................................................	21	1	3.00	2.00	0.00	0.00	1.00	0.00
......................................................................TTAGAGTAGGGGAGCTTAACT..................................................................................	21	1	3.00	2.00	0.00	0.00	1.00	0.00
......................................................................TTAGAATAGGGGAGCATAACTT-................................................................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGTGGAGCTTAACTT-................................................................................	22	1	3.00	1.00	0.00	0.00	2.00	0.00
......................................................................TTAGAATAxGGGAGCTTAACTC-................................................................................	21	1	3.00	0.00	0.00	0.00	3.00	0.00
......................................................................TTAGAGTAGGGGAGCTTAACTT-C...............................................................................	23	1	3.00	1.00	0.00	0.00	2.00	0.00
......................................................................TTAGAATAGGGGAGATTAACTT-................................................................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGACCTTAACTT-................................................................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTGGAATAGGGGAGCTTAACT..................................................................................	21	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAATT-................................................................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGGGCTTAACTT-C...............................................................................	23	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTT-TTC.............................................................................	25	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGAAGCTTAACTT-................................................................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00

droMoj3

GATATATGATGATGA-TT--TTCCAAT------TGTGATGAAATCA--------TTGAGTTCAACTTATCTTAGAATAGGGGAGCTTAACTTAAT----CTGAACACTCAAGCTAAGAGCCTCGATTCTTCGATAATGCGACTAACA--------------------------	Size	Hit Count	Total Norm	V110 Male body	V056 Unknown	V049 Head	V041 Embryo
......................................................................TTAGAATAGGGGAGCTTAACTT.................................................................................	22	1	1056.00	1008.00	34.00	14.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAC...................................................................................	20	1	860.00	851.00	4.00	5.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACT..................................................................................	21	1	568.00	531.00	29.00	8.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTC................................................................................	23	1	377.00	375.00	1.00	1.00	0.00
...............................................................................................................GCTAAGAGCCTCGATTCTTCG.........................................	21	1	202.00	196.00	4.00	2.00	0.00
......................................................................TTAGAATAGGGGAGCTTAA....................................................................................	19	1	175.00	171.00	4.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTT................................................................................	23	1	111.00	100.00	8.00	3.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTC.................................................................................	22	1	104.00	104.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAT....................................................................................	19	1	27.00	27.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAA...................................................................................	20	1	19.00	18.00	1.00	0.00	0.00
.................................................................................................................TAAGAGCCTCGATTCTTCGAT.......................................	21	1	15.00	12.00	3.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTATT...................................................................................	20	1	13.00	13.00	0.00	0.00	0.00
................................................................................................................CTAAGAGCCTCGATTCTTCGAT.......................................	22	1	12.00	12.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTA.....................................................................................	18	1	12.00	7.00	4.00	1.00	0.00
......................................................................TTAGAATAGGGGAGCTTTT....................................................................................	19	1	11.00	11.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACA..................................................................................	21	1	10.00	10.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACC..................................................................................	21	1	9.00	9.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTATC...................................................................................	20	1	9.00	8.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTCT................................................................................	23	1	9.00	9.00	0.00	0.00	0.00
...............................................................................................................GCTAAGAGCCTCGATTCTTCGA........................................	22	1	8.00	8.00	0.00	0.00	0.00
.................................................................................................................TAAGAGCCTCGATTCTTCGATA......................................	22	1	8.00	8.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAT...................................................................................	20	1	7.00	6.00	1.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAATT..................................................................................	21	1	6.00	6.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTA................................................................................	23	1	6.00	6.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAAA..................................................................................	21	1	5.00	5.00	0.00	0.00	0.00
......................................................................TTAGAATATGGGAGCTTAAC...................................................................................	20	1	4.00	4.00	0.00	0.00	0.00
......................................................................TTAGAATAGTGGAGCTTAACTT.................................................................................	22	1	4.00	4.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTATCTC.................................................................................	22	1	4.00	4.00	0.00	0.00	0.00
..............A-TT--ATCCAAT------TGTGTTGAA...................................................................................................................................	19	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTCT....................................................................................	19	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTTT...............................................................................	24	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTA.................................................................................	22	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTTC....................................................................................	19	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAAAT..................................................................................	21	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAGAATAGGGGAGCTTAACTTTC...............................................................................	24	1	3.00	3.00	0.00	0.00	0.00
.................................................................................................................TAAGAGCCTCGATTCTTCGATT......................................	22	1	3.00	3.00	0.00	0.00	0.00

droGri2

TTCAGTTGATTAGA------------------------AGAGTGCA--------TTATGTCAAACTTATCTTAGAATAGGGGAGCTTAACTTTTATCATATTAGCGCTCGAGCTAAGATCCTCAATTCTTGGATAAGGCGACTAGCAA--CT------GCAGT-A----AAAA	Size	Hit Count	Total Norm	V109 Male body
......................................................................TTAGAATAGGGGAGCTTAACT..................................................................................	21	1	96.00	96.00
......................................................................TTAGAATAGGGGAGCTTAACTT.................................................................................	22	1	68.00	68.00
......................................................................TTAGAATAGGGGAGCTTAAC...................................................................................	20	1	12.00	12.00
.......................................................................TAGAATAGGGGAGCTTAACTT.................................................................................	21	1	10.00	10.00
......................................................................TTAGAATAGGGGAGCTTAACTTT................................................................................	23	1	5.00	5.00
.....................................................................CTTAGAATAGGGGAGCTTAAC...................................................................................	21	1	3.00	3.00
....................................................................TCTTAGAATAGGGGAGCTT......................................................................................	19	1	3.00	3.00
......................................................................TTAGAATAGGGGAGCTTCACT..................................................................................	21	1	2.00	2.00
......................................................................TTAGAATAGGGGAGCTTAACTTC................................................................................	23	1	2.00	2.00
......................................................................TTAGAATAGGGGAGCTTAA....................................................................................	19	1	2.00	2.00
.......................................................................TAGAATAGGGGAGCTTAACTTT................................................................................	22	1	1.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACTC.................................................................................	22	1	1.00	1.00
....................................................................TCTTAGAATAGGGGAGCTTAAC...................................................................................	22	1	1.00	1.00
......................................................................TTAGAATAGGGGAGATTAACT..................................................................................	21	1	1.00	1.00
.....................................................................CTTGGAATAGGGGAGCTTAACT..................................................................................	22	1	1.00	1.00
.......................................................................TAGAATAGCGGAGCTTAACTT.................................................................................	21	1	1.00	1.00
.......................................................................TAGAATAGGGGAGCTTAAC...................................................................................	19	1	1.00	1.00
......................................................................TTAGAATAGGGGACCTTAACTT.................................................................................	22	1	1.00	1.00
......................................................................TTAGAATAGGGGAGCTTCC....................................................................................	19	1	1.00	1.00
......................................................................TTAGAATAGGGGAGCTTCACTT.................................................................................	22	1	1.00	1.00
......................................................................TTAGACTAGGGGAGCTTAACTT.................................................................................	22	1	1.00	1.00
......................................................................TTACAATAGGGGAGCTTAACT..................................................................................	21	1	1.00	1.00
....................................................................TCTTAGAATAGGGGAGCTTT.....................................................................................	20	1	1.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACA..................................................................................	21	1	1.00	1.00
......................................................................TTAGAATAGGGGAGCTTTACT..................................................................................	21	1	1.00	1.00
....................................................................TCTTAGAATAGGGGAGCTTAACT..................................................................................	23	1	1.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACC..................................................................................	21	1	1.00	1.00
......................................................................TTAGAATATGGGAGCTTAACTT.................................................................................	22	1	1.00	1.00
......................................................................TTAGAATAGGGGAGCTTAACTA.................................................................................	22	1	1.00	1.00
.....................................................................CTGAGAATAGGGGAGCTTAACT..................................................................................	22	1	1.00	1.00
......................................................................TTAGAATCGGGGAGCTTAACT..................................................................................	21	1	1.00	1.00
.........................................................................GAATAGGGGAGCTTAACT..................................................................................	18	1	1.00	1.00
......................................................................TTGGAATAGGGGAGCTTTACT..................................................................................	21	1	1.00	1.00
......................................................................TTAGAATAGGGGAGCTTACCT..................................................................................	21	1	1.00	1.00
......................................................................TTAGAATCGGGGAGCTTAACTT.................................................................................	22	1	1.00	1.00
.......................................................................TAGAATAGGGGAGCTTAACT..................................................................................	20	1	1.00	1.00
.....................................................................CTTAGAATAGGGGAGCTTAACT..................................................................................	22	1	1.00	1.00
......................................................................TTAGAATAGGGGAGCTTTACTT.................................................................................	22	1	1.00	1.00
.......................................................................TAGAATAGGGGAGTTTACCTT.................................................................................	21	1	1.00	1.00

Generated: 04/20/2012 at 05:31:46 EDT

dme-mir-964

chr2L:5642102-5642201 +

Known_mirbase

intron

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

Visually pleasing best hits from LASTZ and MAF

Legend

Re-alignment after removal of non-confident orthologs

20-way Secondary Structure

Small RNA-seq read pileup