dme-mir-988- 12- and 20-way alignments

dme-mir-988	chr2R:8046377-8046475 -	Known_mirbase
[View on miRBase]	[View on UCSC Genome Browser {Cornell Mirror}]	intron

Legend:

   mature strand at position 8046394-8046414
   star strand at position 8046429-8046450
   mutations
   read mismatches
   coordinate mismatch (possible incorrect ortholog)

12-way Fast Statistical Aligner re-alignment (From MAFs)

Species	Coordinate	Alignment
dm3	chr2R:8046362-8046490 -	CAAAA---GAA-----------CATAGT-----------TG----------ACGGCGGTA-CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGATCTGCGAAATAC----A-CAGTGGTAT
droSim1	chr2R_random:2089209-2089337 -	CTAGA---GAA-----------CATTTT-----------TG----------ATGGCGGTA-CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGATCTGAGAAATAC----A-CAGTGATAT
droSec1	super_1:5591420-5591548 -	CTAGA---GAA-----------CATTTT-----------TG----------ATGGCGGTA-CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGATCTGCGAAATAC----A-CAGTGTTTT
droYak2	chr2R:8904838-8904966 +	CTAAA---TAA-----------CATTTT-----------TC----------ATGGCGTTA-CTGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGGTGACCTGCGAAATAC----A-CAGGGATAT
droEre2	scaffold_4845:17747735-17747863 +	CAGAA---AAA-----------CATATT-----------TG----------ATGACGGTA-CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--GAAGGTGACCTGCGAAATAC----A-CAGTGTTAT
droAna3	scaffold_13266:2579699-2579821 +	GTAAG----------------------T-----------GG----------AAAGGTGTA-CTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATAGGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--CAAGGTGCTTTCCAACGGCAACATATCA---GCAA
dp4	chr3:405636-405776 -	TTATATCC-----CGGAT------AACTGGGTA-TCCAGGAATC----------CAGACT-GTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATATGCATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGTTGAA-TCCCACACCT----A-CACTCTCAT
droPer1	super_2:590074-590214 -	TTATATCC-----CGGAT------AACTGGGTA-TCCAGGAATC----------CAGACT-GTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATATGCATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGTTGAA-TCCCACACCT----A-CACTCTCAG
droWil1	scaffold_181141:3254344-3254484 +	CTAAA---TATCTTAAGT------ACATTTGT--TTAGTTA----------AAACGAATT-GTGGGCATTTCGGGCGTGTGATTTGTAGCAAAGTGATATGTACTTGAT--AATCCCCTTGTTGCAAACCTCACGCCGGAAAGATGTC-TC-CAAATAC----ATCAGT---CG
droVir3	scaffold_12875:19840342-19840482 +	TTTAT---GCA--CAGAT----CAT-------GTCCAGAGTGTGTA--------ATATAT-CTGCGCATTTTGGGCGTGTGATTTGTGGCAAAGTGATGAGC-TTGGATTCCATCCCCTTGTTGCAAACCTCACGCC--AAAGGTGGCGCATTTAACCA----G-CAATATAAA
droMoj3	scaffold_6496:6364088-6364240 -	TTCAT-TT-----TGGATAAAGACT-------ATTCGGAGTGTTATATCTATCATGTGTATTTGCGCATTTTGGTCGTGTGATTTGTGGCAAAGTGATGAGC-TATGATTCCATCCCCTTGTTGCAAACCTCACGCT--GAAGGTGACGCATAGCAGCA----A-CAATTGAAA
droGri2	scaffold_15245:18189025-18189165 +	TTCTTTTAAAG-----------CATATTAA--ATTCCGAGTGTG----------GTATTT-CTGTGCATTTTGGGCGTGTGATTTGTGGCAAAGTGATGAGCT--TGATTCCATCCCCTTGTTGCAAACCTCACGCC--GAAGGTGGCGCATCTAAGCA----A-CAATATTAA

20-way Fast Statistical Aligner re-alignment (Top LASTZ hits)

Species	Coordinate	Lastz Id	Alignment
dm3	chr2R:8046362-8046490 -	NA	CAAAAG-----------AACATAGTTG--------A----------------------------------CGGCGG------------------TACCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGATCTGC--GAAA----TACA-------------------C--AGTGGTAT
droSim1	chr2R_random:2089209-2089337 -	1	CTAGAG-----------AACATTTTTG--------A----------------------------------TGGCGG------------------TACCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGATCTGA--GAAA----TACA-------------------C--AGTGATAT
droSec1	super_1:5591420-5591548 -	1	CTAGAG-----------AACATTTTTG--------A----------------------------------TGGCGG------------------TACCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGATCTGC--GAAA----TACA-------------------C--AGTGTTTT
droYak2	chr2R:8904838-8904966 +	1	CTAAAT-----------AACATTTTTC--------A----------------------------------TGGCGT------------------TACTGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGGTGACCTGC--GAAA----TACA-------------------C--AGGGATAT
droEre2	scaffold_4845:17747735-17747863 +	1	CAGAAA-----------AACATATTTG--------A----------------------------------TGACGG------------------TACCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--GAAGGTGACCTGC--GAAA----TACA-------------------C--AGTGTTAT
droEug1	scf7180000409462:417379-417508 +	1	TATAAA------------TCCGAATAA--------ATTCC--------------------------------TCGG------------------CAATGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--GAAGATGAGTTCCA--TA-----AACAAC--------------------CCGAATAG
droBia1	scf7180000302292:862273-862408 -	1	AAAAA------------AATGTCTTCA--------ACTCT--------------------------------TCAG------------------TACTGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGAGTCCG-TTA------AACATCACCA-------------A--ACGAATAT
droTak1	scf7180000415260:195646-195766 +	1	TGAATA-----------AATA-------------------------------------------------TAGCAG------------------TTCAGGACATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGAATCCG---AAA----TACAAC---------------------GCCAAAT
droEle1	scf7180000491214:3580572-3580696 -	1	CACACG-----------AGGATTT---------------T--------------------------------CCGG------------------TTCAGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGAGACCTATGA------AACAAC--------------------ATTAGTTA
droRho1	scf7180000779932:485536-485675 -	1	CAGTG------------AACAAATTGG--------ATTGT--------------------------------CCGA------------------CTCTGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGAGTCCCAC--A-A---AACAACATTAAT-TA--------A--AGTGGTAA
droFic1	scf7180000453809:442538-442687 -	1	TAAAAT-----------AA-----TTG--------G-TGTAG----------------------G-----GGATATTAAA----------GT--ATCTGGGCGTTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGGATCCCAC--A-T---AACATCAAAT----G-AAATAAGC--TGAAGTGA
droKik1	scf7180000302367:405235-405359 +	1	CTTGG--------------CATTTG---------------------------------------------TGACTA--------TC--------AAGTGGGCATTTTGGGTGTGTGATTTGTGGCAAAGTGATATGTATTTGAT--GATCCCCTTGTTGCAAACCTCACGCC--AAAGATGGAATCC--TATC----CACATC---------------------AAGGAAG
droAna3	scaffold_13266:2579688-2579821 +	1	TAATGG-----------AATCAGT-----AAGTGGA----------------------------------AAGGTG------------------TACTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATAGGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--CAAGGTGCTTTCCA--AC-----GGCAACA----------------T--ATCAGCAA
droBip1	scf7180000396759:1640703-1640838 +	1	CTAAGGGTTGAATAGTGAACAGG---------------------------------------------------TT---------------TTTTACTGGACATTTTGGGTGTGTGATTTGTGGCAATGTGATAGGTATTTGAT--AATCCCCTTGTTGCAAACCTCACGCC--AAAGATGATATCCAT--A-T---AGCAACGTTATT-------------------AAG
dp4	chr3:405625-405769 -	1	CCGGAT-----------AAC---T--G-------------------------GGTATCCAGGAA------TCCAGA------------------CTGTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATATGCATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGTTGAATCCCAC--A-CC--TACA---CTCTCATATAA---------TGATCAT
droPer1	super_2:590063-590227 -	1	AAGAAA-----------AAAGTTGTTA---T----ATC---CCGGATAACTGGGTATCCAGGAA------TCCAGA------------------CTGTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATATGCATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGTTGAATCCCAC--A-CC--TACA---CTCTCAGATAA---------TGATCAT
droWil1	scaffold_181141:3254354-3254482 +	1	AAGTA--------------CATTT--GTTTAGTTAA----------------------------------AACGAA------------------TTGTGGGCATTTCGGGCGTGTGATTTGTAGCAAAGTGATATGTACTTGAT--AATCCCCTTGTTGCAAACCTCACGCCGGAAAGATGTCTCC----AAA----TACATC--------------------AG-----T
droVir3	scaffold_12875:19840344-19840491 +	1	TATGCA-------------CAGA--TC--------A-TGTCC----------------------AG----AGTGTGTAAT----------AT--ATCTGCGCATTTTGGGCGTGTGATTTGTGGCAAAGTGATGAGC-TTGGATTCCATCCCCTTGTTGCAAACCTCACGCC--AAAGGTGGCG----C--A-TTTAACCAGCAATA-----TAAA----G--ATTCATGT
droMoj3	scaffold_6496:6364073-6364233 -	1	TGGATA-----------AAGACTA---------------TTC----------------------G-----GAGTGTTATATCTATCATGTGT--ATTTGCGCATTTTGGTCGTGTGATTTGTGGCAAAGTGATGAGC-TATGATTCCATCCCCTTGTTGCAAACCTCACGCT--GAAGGTGACG----C--A-TAGCAGCAACAATT----G-AAAGATATTCGATTAAAC
droGri2	scaffold_15245:18189031-18189168 +	1	TAAAG--------------CATATTAA--------ATT---C----------------------CGAGTGTGGTAT------------------TTCTGTGCATTTTGGGCGTGTGATTTGTGGCAAAGTGATGAG--CTTGATTCCATCCCCTTGTTGCAAACCTCACGCC--GAAGGTGGCG----C--A-TCTAAGCAACAA---------------T--ATTAATAT

[View All Possible Orthologs]

Original 12-way multiz alignment with reads super-imposed

Species

Alignment

dm3

CAAAA---GAA-----------CATAGT-----------TG----------ACGGCGGTA-CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGATCTGCGAAATAC----A-CAGTGGTAT

Size

Hit Count

Total Norm

droSim1

CTAGA---GAA-----------CATTTT-----------TG----------ATGGCGGTA-CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGATCTGAGAAATAC----A-CAGTGATAT	Size	Hit Count	Total Norm	V044 Embryo	M023 Head	M024 Male body	M025 Embryo
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	1120.00	401.00	470.00	80.00	169.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	1116.00	211.00	575.00	75.00	255.00
............................................................................GTGTGATTTGTAGCAAAGTGAT............................................................................	22	1	758.00	21.00	452.00	132.00	153.00
............................................................................GTGTGATTTGTAGCAAAGTGATA...........................................................................	23	1	353.00	10.00	133.00	62.00	148.00
............................................................................GTGTGATTTGTAGCAAAGTGA.............................................................................	21	1	158.00	11.00	106.00	25.00	16.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	105.00	7.00	65.00	17.00	16.00
.............................................................................TGTGATTTGTAGCAAAGTGATA...........................................................................	22	1	80.00	5.00	37.00	16.00	22.00
............................................................................GTGTGATTTGTAGCAAAGTG..............................................................................	20	1	72.00	3.00	52.00	16.00	1.00
............................................................................GTGTGATTTGTAGCAAAGTGATT...........................................................................	23	1	62.00	0.00	34.00	14.00	14.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	51.00	24.00	17.00	4.00	6.00
............................................................................GTGTGATTTGTAGCAAAG................................................................................	18	1	46.00	0.00	31.00	9.00	6.00
............................................................................GTGTGATTTGTAGCAAAGT...............................................................................	19	1	41.00	1.00	19.00	19.00	2.00
............................................................................GTGTGATTTGTAGCAAAGTGAC............................................................................	22	1	25.00	0.00	16.00	5.00	4.00
............................................................................GTGTGATTTGTAGCAAAGTGG.............................................................................	21	1	22.00	0.00	18.00	3.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	19.00	2.00	13.00	3.00	1.00
.............................................................................TGTGATTTGTAGCAAAGTGAT............................................................................	21	1	15.00	2.00	11.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCC--...................................	23	1	12.00	0.00	2.00	1.00	9.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCT--...................................	23	1	12.00	2.00	7.00	1.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGA......................................	22	1	10.00	0.00	7.00	0.00	3.00
..................................................................................................................CCCCTTGTTGCAAACCTC..........................................	18	1	10.00	0.00	8.00	1.00	1.00
............................................................................GTGTGATTTGTAGCAAAGTGATG...........................................................................	23	1	8.00	0.00	3.00	1.00	4.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	8.00	8.00	0.00	0.00	0.00
............................................................................GTGTGATTTGTAGCAAAGTGATC...........................................................................	23	1	7.00	0.00	4.00	0.00	3.00
...................................................................................................................CCCTTGTTGCAAACCTCACGC......................................	21	1	7.00	1.00	5.00	0.00	1.00
............................................................................GTGTGATTTGTAGCAAGGTGA.............................................................................	21	1	6.00	0.00	6.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACT.......................................	21	1	6.00	0.00	4.00	1.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGTT--...................................	23	1	5.00	0.00	3.00	2.00	0.00
............................................................................GTGTGATTTGTAGCAAAGTGT.............................................................................	21	1	5.00	0.00	5.00	0.00	0.00
...........................................................................TGTGTGATTTGTAGCAAAGTGAT............................................................................	23	1	5.00	0.00	4.00	0.00	1.00
....................................................................................................................CCTTGTTGCAAACCTCACGCC--...................................	21	1	5.00	0.00	4.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGG......................................	22	1	5.00	0.00	3.00	0.00	2.00
.............................................................................TGTGATTTGTAGCAAAGTGATATG.........................................................................	24	1	5.00	1.00	0.00	0.00	4.00
............................................................................CTGTGATTTGTAGCAAAGTGATA...........................................................................	23	1	4.00	0.00	0.00	0.00	4.00
............................................................................GTGTGATTTGTAGCAAGGTGAT............................................................................	22	1	4.00	0.00	3.00	0.00	1.00
............................................................................GTGTGATTTGTAGCAAAGTGAA............................................................................	22	1	4.00	1.00	1.00	2.00	0.00
..................................................................................................................CCCCTTGTTACAAACCTCACG.......................................	21	1	4.00	1.00	2.00	0.00	1.00
.............................................................................TGTGATTTGTAGCAAAGTGA.............................................................................	20	1	4.00	0.00	3.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCA--...................................	23	1	4.00	0.00	3.00	0.00	1.00
.............................................................................TGTGATTTGTAGCAAAGTGATT...........................................................................	22	1	4.00	0.00	4.00	0.00	0.00
............................................................................TTGTGATTTGTAGCAAAGTGATA...........................................................................	23	1	4.00	0.00	0.00	1.00	3.00
..................................................................................................................CCCCTTGTTGCAAAACTCACG.......................................	21	1	4.00	4.00	0.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCAT........................................	20	1	3.00	0.00	3.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCACACCTCACG.......................................	21	1	3.00	3.00	0.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCACACCTCACGC......................................	22	1	3.00	3.00	0.00	0.00	0.00
............................................................................TTGTGATTTGTAGCAAAGTGAT............................................................................	22	1	3.00	0.00	1.00	1.00	1.00
.............................................................................TTTGATTTGTAGCAAAGTGATA...........................................................................	22	1	3.00	0.00	2.00	0.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACAC......................................	22	1	3.00	0.00	1.00	0.00	2.00
.................................................................................................................TCCCCTTGTTGCAAACCTCACG.......................................	22	1	3.00	3.00	0.00	0.00	0.00
..................................................................................................................CCCCTTGCTGCAAACCTCACG.......................................	21	1	3.00	2.00	1.00	0.00	0.00
....................................................................................................................CCTTGTTGCAAACCTCACGC......................................	20	1	3.00	3.00	0.00	0.00	0.00

droSec1

CTAGA---GAA-----------CATTTT-----------TG----------ATGGCGGTA-CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGATCTGCGAAATAC----A-CAGTGTTTT	Size	Hit Count	Total Norm	V113 Male body	V114 Embryo	V115 Head
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	1676.00	65.00	675.00	936.00
............................................................................GTGTGATTTGTAGCAAAGTGAT............................................................................	22	1	1089.00	588.00	143.00	358.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	959.00	47.00	397.00	515.00
............................................................................GTGTGATTTGTAGCAAAGTGA.............................................................................	21	1	691.00	317.00	90.00	284.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	566.00	101.00	114.00	351.00
............................................................................GTGTGATTTGTAGCAAAGTG..............................................................................	20	1	506.00	153.00	12.00	341.00
............................................................................GTGTGATTTGTAGCAAAGTGATA...........................................................................	23	1	120.00	66.00	26.00	28.00
.............................................................................TGTGATTTGTAGCAAAGTGAT............................................................................	21	1	77.00	20.00	25.00	32.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	56.00	1.00	28.00	27.00
............................................................................GTGTGATTTGTAGCAAAGT...............................................................................	19	1	53.00	20.00	4.00	29.00
............................................................................GTGTGATTTGTAGCAAAGTGATT...........................................................................	23	1	53.00	30.00	6.00	17.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	41.00	4.00	13.00	24.00
.............................................................................TGTGATTTGTAGCAAAGTGATA...........................................................................	22	1	34.00	13.00	15.00	6.00
........................................................GGTA-CCGGGCATTTTGGGT..................................................................................................	19	1	32.00	3.00	19.00	10.00
.............................................................................TGTGATTTGTAGCAAAGTGA.............................................................................	20	1	29.00	8.00	3.00	18.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	29.00	2.00	13.00	14.00
............................................................................GTGTGATTTGTAGCAAAGTGT.............................................................................	21	1	27.00	15.00	0.00	12.00
...................................................................................................................CCCTTGTTGCAAACCTCACGC......................................	21	1	21.00	1.00	6.00	14.00
...................................................................................................................CCCTTGTTGCAAACCTCACGT......................................	21	1	10.00	2.00	4.00	4.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGTT--...................................	23	1	9.00	2.00	0.00	7.00
............................................................................GTGTGATTTGTAGCAAGGTGAT............................................................................	22	1	9.00	2.00	0.00	7.00
............................................................................GTGTGATTTGTAGCAAAGAGAT............................................................................	22	1	9.00	9.00	0.00	0.00
...........................................................................TGTGTGATTTGTAGCAAAGTGAT............................................................................	23	1	8.00	2.00	2.00	4.00
...................................................................................................................CCCCTxTTGCAAACCTCACG.......................................	19	1	8.00	0.00	6.00	2.00
............................................................................GTGTGATTTGTAGCAAAGTGATG...........................................................................	23	1	8.00	2.00	1.00	5.00
............................................................................GTGTGATTTGTAGCAAAGTGATATG.........................................................................	25	1	6.00	4.00	1.00	1.00
............................................................................GTGTGATTTGTAGCAAGGTGA.............................................................................	21	1	6.00	1.00	0.00	5.00
..................................................................................................................CCCCTTGTTGCAAACCTTACG.......................................	21	1	6.00	0.00	4.00	2.00
..................................................................................................................CCCCTTGTTGCAAATCTCACG.......................................	21	1	5.00	0.00	3.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCT--...................................	23	1	4.00	1.00	1.00	2.00
............................................................................GTGTGATTTGTAGCAAAGTGGT............................................................................	22	1	4.00	2.00	1.00	1.00
............................................................................GTGTGATTTGTAGCAAAGCGA.............................................................................	21	1	4.00	2.00	1.00	1.00
............................................................................GTGTGATTTGTAGCxAAGTGAT............................................................................	21	1	4.00	2.00	1.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCCCG.......................................	21	1	4.00	1.00	3.00	0.00
...........................................................................TGTGTGATTTGTAGCAAAGTGA.............................................................................	22	1	4.00	1.00	2.00	1.00
..................................................................................................................CCTCTTGTTGCAAACCTCACG.......................................	21	1	4.00	0.00	3.00	1.00
............................................................................GTGTGATTTGTAGCAAAG................................................................................	18	1	4.00	0.00	0.00	4.00
............................................................................GTGTGATTTGTAGCAAGGTGATA...........................................................................	23	1	4.00	2.00	1.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGA......................................	22	1	3.00	2.00	0.00	1.00
..................................................................................................................CCCCTTGTTGAAAACCTCACG.......................................	21	1	3.00	0.00	1.00	2.00
............................................................................GTGTGGTTTGTAGCAAAGTGA.............................................................................	21	1	3.00	1.00	2.00	0.00
.........................................................GTA-CCGGGCATTTTGGGT..................................................................................................	18	1	3.00	0.00	3.00	0.00
...........................................................................TGTGTGATTTGTAGCAAAGTG..............................................................................	21	1	3.00	1.00	0.00	2.00
............................................................................GTGTGATTTTTAGCAAAGTGA.............................................................................	21	1	3.00	1.00	1.00	1.00
..................................................................................................................CCCCTTATTGCAAACCTCACGC......................................	22	1	3.00	0.00	0.00	3.00
............................................................................GTGTGATTTGTAGCAAGGTG..............................................................................	20	1	3.00	0.00	0.00	3.00
............................................................................GTGTGATTTGTAGCAAAGAG..............................................................................	20	1	3.00	3.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACTC......................................	22	1	3.00	0.00	2.00	1.00
............................................................................GTGTGATTTGCAGCAAAGTGA.............................................................................	21	1	3.00	1.00	1.00	1.00
..................................................................................................................CCCCTTGTTGCxAACCTCACGC......................................	21	1	3.00	0.00	2.00	1.00
..................................................................................................................CCCCTTGTTGCAAACTTCACGC......................................	22	1	3.00	0.00	3.00	0.00
.....................................................................................................................CTTGTTGCAAACCTCACG.......................................	18	1	3.00	1.00	1.00	1.00
..................................................................................................................CCCCTTGTTGCAAGCCTCACG.......................................	21	1	3.00	0.00	0.00	3.00
..................................................................................................................CCCCTTGTTGCAAATCTCACGC......................................	22	1	3.00	0.00	3.00	0.00
............................................................................GTGTGATTTGTAGCAAAGTC..............................................................................	20	1	3.00	0.00	0.00	3.00
............................................................................GTGTGAxTTGTAGCAAAGTGA.............................................................................	20	1	3.00	0.00	1.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTCACT.......................................	21	1	3.00	0.00	1.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTTACGC......................................	22	1	3.00	0.00	3.00	0.00
............................................................................GTGTGACTTGTAGCAAAGTGA.............................................................................	21	1	3.00	1.00	1.00	1.00

droYak2

CTAAA---TAA-----------CATTTT-----------TC----------ATGGCGTTA-CTGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGGTGACCTGCGAAATAC----A-CAGGGATAT	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	988.00	342.00	189.00	40.00	312.00	105.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	882.00	232.00	155.00	24.00	253.00	218.00
............................................................................GTGTGATTTGTAGCAAAGTGAT............................................................................	22	1	238.00	23.00	11.00	92.00	27.00	85.00
............................................................................GTGTGATTTGTAGCAAAGTGA.............................................................................	21	1	121.00	13.00	5.00	48.00	36.00	19.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	100.00	32.00	9.00	22.00	34.00	3.00
............................................................................GTGTGATTTGTAGCAAAGTGATA...........................................................................	23	1	39.00	5.00	0.00	5.00	1.00	28.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	36.00	1.00	6.00	4.00	8.00	17.00
............................................................................GTGTGATTTGTAGCAAAGTG..............................................................................	20	1	28.00	6.00	3.00	10.00	9.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCT--...................................	23	1	19.00	3.00	4.00	1.00	5.00	6.00
..................................................................................................................CCCCTTGTTGCAAACCTCCCG.......................................	21	1	19.00	0.00	2.00	0.00	15.00	2.00
............................................................................GTGTGATTTGTAGCAAAGTGATT...........................................................................	23	1	19.00	6.00	0.00	3.00	1.00	9.00
.............................................................................TGTGATTTGTAGCAAAGTGAT............................................................................	21	1	16.00	0.00	2.00	6.00	7.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCCCGC......................................	22	1	14.00	0.00	4.00	0.00	9.00	1.00
..................................................................................................................CCCCTTGTTGCAACCCTCACG.......................................	21	1	13.00	3.00	0.00	0.00	10.00	0.00
..................................................................................................................CCCCTTGTTGCCAACCTCACG.......................................	21	1	13.00	5.00	2.00	0.00	6.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	13.00	8.00	1.00	0.00	4.00	0.00
..................................................................................................................CCCCTTGTTGCCAACCTCACGC......................................	22	1	11.00	2.00	5.00	0.00	4.00	0.00
............................................................................GTGTGATTTGTAGCAAAGT...............................................................................	19	1	10.00	0.00	2.00	7.00	0.00	1.00
..................................................................................................................CCCCTTGTTGCACACCTCACG.......................................	21	1	10.00	4.00	1.00	0.00	5.00	0.00
..................................................................................................................CCCCTTGTTGCACACCTCACGC......................................	22	1	10.00	1.00	1.00	0.00	8.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACGC......................................	21	1	10.00	6.00	0.00	0.00	3.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCC--...................................	23	1	9.00	2.00	0.00	0.00	0.00	7.00
.............................................................................TGTGATTTGTAGCAAAGTGATA...........................................................................	22	1	9.00	3.00	1.00	4.00	0.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGA......................................	22	1	6.00	2.00	2.00	0.00	1.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	6.00	1.00	1.00	0.00	1.00	3.00
..................................................................................................................CCCCTTGTTGCAACCCTCACGC......................................	22	1	5.00	0.00	1.00	0.00	4.00	0.00
..................................................................................................................CCCCTTGTTGCAAACATCACG.......................................	21	1	5.00	2.00	0.00	0.00	3.00	0.00
..................................................................................................................CCCCTTGGTGCAAACCTCACGC......................................	22	1	5.00	1.00	2.00	0.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACT.......................................	21	1	5.00	0.00	0.00	1.00	4.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACA.......................................	21	1	4.00	0.00	0.00	0.00	3.00	1.00
..................................................................................................................CCCCTTGCTGCAAACCTCACGC......................................	22	1	4.00	0.00	0.00	0.00	4.00	0.00
..................................................................................................................TCCCTTGTTGCAAACCTCACGC......................................	22	1	4.00	1.00	1.00	1.00	1.00	0.00
..................................................................................................................CCCCTTGGTGCAAACCTCACG.......................................	21	1	4.00	0.00	0.00	0.00	4.00	0.00
..................................................................................................................TCCCTTGTTGCAAACCTCACG.......................................	21	1	3.00	1.00	0.00	0.00	2.00	0.00
..................................................................................................................CCCCTTCTTGCAAACCTCACG.......................................	21	1	3.00	1.00	0.00	0.00	2.00	0.00
............................................................................GTGTGATTTGTAGCAAAGTGG.............................................................................	21	1	3.00	0.00	0.00	0.00	0.00	3.00
........................................................GTTA-CTGGGCATTTTGGGT..................................................................................................	19	1	3.00	2.00	0.00	1.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCATACCTCACG.......................................	21	1	3.00	2.00	1.00	0.00	0.00	0.00
............................................................................GTGTGCTTTGTAGCAAAGTGA.............................................................................	21	1	3.00	1.00	0.00	1.00	1.00	0.00
..................................................................................................................CCCCTTGTTTCAAACCTCACG.......................................	21	1	3.00	1.00	0.00	0.00	2.00	0.00
..................................................................................................................CCACTTGTTGCAAACCTCACG.......................................	21	1	3.00	1.00	1.00	0.00	1.00	0.00
............................................................................GTGTGATTTGTATCAAAGTGAT............................................................................	22	1	3.00	0.00	2.00	0.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACTC......................................	22	1	3.00	1.00	0.00	0.00	2.00	0.00
............................................................................GTGTGATTTGTAGCAAAGTGCT............................................................................	22	1	3.00	1.00	0.00	0.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCGAACCTCACG.......................................	21	1	3.00	0.00	1.00	0.00	2.00	0.00
.....................................................................................................................CTTGTTGCAAACCTCACG.......................................	18	1	3.00	2.00	0.00	1.00	0.00	0.00
..................................................................................................................CCCCTTGTCGCAAACCTCACG.......................................	21	1	3.00	1.00	0.00	0.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCCCACG.......................................	21	1	3.00	1.00	1.00	0.00	1.00	0.00

droEre2

CAGAA---AAA-----------CATATT-----------TG----------ATGACGGTA-CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--GAAGGTGACCTGCGAAATAC----A-CAGTGTTAT	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	1331.00	144.00	140.00	51.00	996.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	1013.00	106.00	169.00	49.00	689.00
............................................................................GTGTGATTTGTAGCAAAGTGAT............................................................................	22	1	390.00	10.00	36.00	0.00	344.00
............................................................................GTGTGATTTGTAGCAAAGTGA.............................................................................	21	1	248.00	4.00	27.00	0.00	217.00
............................................................................GTGTGATTTGTAGCAAAGTG..............................................................................	20	1	239.00	0.00	15.00	0.00	224.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	201.00	6.00	22.00	10.00	163.00
...........................................................................TGTGTGATTTGTAGCAAAGTGA.............................................................................	22	1	52.00	0.00	2.00	0.00	50.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	37.00	2.00	4.00	1.00	30.00
............................................................................GTGTGATTTGTAGCAAAGTGATA...........................................................................	23	1	33.00	3.00	5.00	0.00	25.00
..................................................................................................................CACCTTGTTGCAAACCTCACG.......................................	21	1	23.00	2.00	0.00	0.00	21.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	22.00	4.00	2.00	1.00	15.00
.............................................................................TGTGATTTGTAGCAAAGTGAT............................................................................	21	1	21.00	0.00	6.00	0.00	15.00
..................................................................................................................CCCATTGTTGCAAACCTCACGC......................................	22	1	19.00	0.00	0.00	0.00	19.00
..................................................................................................................CACCTTGTTGCAAACCTCACGC......................................	22	1	19.00	0.00	1.00	0.00	18.00
..................................................................................................................CCCATTGTTGCAAACCTCACG.......................................	21	1	18.00	0.00	0.00	0.00	18.00
..................................................................................................................CCACTTGTTGCAAACCTCACG.......................................	21	1	18.00	0.00	0.00	0.00	18.00
..................................................................................................................CCACTTGTTGCAAACCTCACGC......................................	22	1	16.00	0.00	0.00	0.00	16.00
............................................................................GTGTGATTTGTAGCAAAGT...............................................................................	19	1	15.00	0.00	1.00	0.00	14.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCT--...................................	23	1	14.00	1.00	3.00	4.00	6.00
...................................................................................................................CCCTTGTTGCAAACCTCACGC......................................	21	1	14.00	4.00	2.00	0.00	8.00
.............................................................................TGTGATTTGTAGCAAAGTGA.............................................................................	20	1	13.00	0.00	0.00	0.00	13.00
.............................................................................TGTGATTTGTGGCAAAGTGATG...........................................................................	22	1	12.00	0.00	0.00	12.00	0.00
...........................................................................TGTGTGATTTGTAGCAAAGTG..............................................................................	21	1	12.00	0.00	2.00	0.00	10.00
............................................................................GTGTGATTTGTAGCAAAGTGATT...........................................................................	23	1	12.00	1.00	2.00	0.00	9.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	10.00	0.00	1.00	3.00	6.00
...........................................................................TGTGTGATTTGTAGCAAAGTGAT............................................................................	23	1	9.00	0.00	2.00	0.00	7.00
..................................................................................................................CCCCTTTTTGCAAACCTCACGC......................................	22	1	9.00	0.00	0.00	0.00	9.00
..................................................................................................................CCCCTTGTTGCAAACCTCACTC......................................	22	1	9.00	1.00	1.00	1.00	6.00
..................................................................................................................CCCCTTGTTGCAAACCTCACT.......................................	21	1	9.00	0.00	0.00	1.00	8.00
..................................................................................................................ACCCTTGTTGCAAACCTCACG.......................................	21	1	8.00	0.00	1.00	0.00	7.00
............................................................................GTGTGATTTGTGGCAAAGTGAT............................................................................	22	1	8.00	0.00	0.00	7.00	1.00
..................................................................................................................CCCCTTGTTGCAAACATCACG.......................................	21	1	7.00	0.00	0.00	0.00	7.00
..................................................................................................................CCCCTTTTTGCAAACCTCACG.......................................	21	1	7.00	0.00	0.00	0.00	7.00
..................................................................................................................CCCCTTGTTGCAAACCTCCCG.......................................	21	1	7.00	2.00	3.00	1.00	1.00
............................................................................GTGTGATTTGTAGCAAAG................................................................................	18	1	7.00	0.00	1.00	0.00	6.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCC--...................................	23	1	6.00	2.00	1.00	1.00	2.00
............................................................................GTGTTATTTGTAGCAAAGTGAT............................................................................	22	1	6.00	0.00	0.00	0.00	6.00
..................................................................................................................CCACTTGTTGCAAACCTCACGT......................................	22	1	6.00	0.00	0.00	0.00	6.00
..................................................................................................................CCCCTTGTTTCAAACCTCACG.......................................	21	1	6.00	0.00	0.00	1.00	5.00
..................................................................................................................TCCCTTGTTGCAAACCTCACGC......................................	22	1	6.00	1.00	3.00	0.00	2.00
...................................................................................................................CCCTTGTTGCAAACCTCACGT......................................	21	1	6.00	0.00	0.00	0.00	6.00
............................................................................GTGTGATTTGTAGCAAAGTTAT............................................................................	22	1	6.00	1.00	0.00	0.00	5.00
..................................................................................................................CCCATTGTTGCAAACCTCACGT......................................	22	1	6.00	0.00	0.00	0.00	6.00
..................................................................................................................CCCCTTGTTGCAAACATCACGC......................................	22	1	5.00	0.00	0.00	0.00	5.00
..................................................................................................................CCCCTTGTTGAAAACCTCACG.......................................	21	1	4.00	0.00	0.00	1.00	3.00
............................................................................GTGTGATTTGTAGCAAAGTGT.............................................................................	21	1	4.00	0.00	1.00	0.00	3.00
..................................................................................................................CCCCTTGTTGCAAACCTAACG.......................................	21	1	4.00	0.00	0.00	0.00	4.00
..................................................................................................................CCCCTTGTTGCAAACCTAACGC......................................	22	1	4.00	0.00	0.00	0.00	4.00
..................................................................................................................CCCCTTGCTGCAAACCTCACGC......................................	22	1	4.00	3.00	0.00	1.00	0.00
............................................................................GTGTGATTTGTAGCAAAGTGATG...........................................................................	23	1	4.00	1.00	0.00	0.00	3.00
............................................................................GTGTGATTTGTGGCAAAGTGA.............................................................................	21	1	4.00	0.00	0.00	3.00	1.00
.................................................................................................................TCCCCTTGTTGCAAACCTCACG.......................................	22	1	4.00	1.00	0.00	2.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCCCACG.......................................	21	1	4.00	0.00	0.00	3.00	1.00
..................................................................................................................CCCCTTGCTGCAAACCTCACG.......................................	21	1	4.00	1.00	0.00	0.00	3.00
..................................................................................................................CCCCTTGTTGCAGACCTCACG.......................................	21	1	4.00	1.00	1.00	0.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGA......................................	22	1	3.00	0.00	2.00	0.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCCCGC......................................	22	1	3.00	1.00	1.00	1.00	0.00
............................................................................GTGTGATTTGCAGCAAAGTGAT............................................................................	22	1	3.00	0.00	1.00	0.00	2.00
..................................................................................................................CCCCTTGTTGCGAACCTCACGC......................................	22	1	3.00	0.00	0.00	1.00	2.00
..................................................................................................................CCCCTTATTGCAAACCTCACG.......................................	21	1	3.00	1.00	0.00	0.00	2.00
............................................................................GTGTGATTTGTAGCAAAGTTA.............................................................................	21	1	3.00	0.00	1.00	0.00	2.00
...................................................................................................................CCCCTxTTGCAAACCTCACG.......................................	19	1	3.00	0.00	0.00	0.00	3.00
.............................................................................TGTGATTTGTAGCAAAGTGATA...........................................................................	22	1	3.00	1.00	0.00	0.00	2.00
............................................................................GTGTGATTTGTGGCAAAGTGATA...........................................................................	23	1	3.00	0.00	0.00	3.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACCC......................................	22	1	3.00	1.00	0.00	0.00	2.00
............................................................................GTGTGATTTGTAGCAAGGTGA.............................................................................	21	1	3.00	0.00	0.00	0.00	3.00
..................................................................................................................CCCCTTGTTGCAAACCTTT.........................................	19	1	3.00	0.00	0.00	0.00	3.00
..................................................................................................................CCCCTTGTTGCCAACCTCACG.......................................	21	1	3.00	1.00	1.00	0.00	1.00
..................................................................................................................CCCCTTGTTACAAACCTCACG.......................................	21	1	3.00	0.00	0.00	0.00	3.00
........................................................GGTA-CCGGGCATTTTGGGT..................................................................................................	19	1	3.00	0.00	0.00	0.00	3.00
..................................................................................................................CCCCTTGTTGCxAACCTCACG.......................................	20	1	3.00	0.00	0.00	0.00	3.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCA--...................................	23	1	3.00	0.00	0.00	2.00	1.00
..................................................................................................................CCCCTTGTTTCAAACCTCACGC......................................	22	1	3.00	1.00	1.00	0.00	1.00
..................................................................................................................CCCCTTGTTGCAAGCCTCACGC......................................	22	1	3.00	1.00	0.00	0.00	2.00
....................................................................................................................CCTTGTTGCAAACCTCACG.......................................	19	1	3.00	0.00	0.00	0.00	3.00

droAna3

GTAAG----------------------T-----------GG----------AAAGGTGTA-CTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATAGGTATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--CAAGGTGCTTTCCAACGGCAACATATCA---GCAA	Size	Hit Count	Total Norm	V105 Male body	V106 Head	V055 Unknown	V039 Embryo
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	550.00	32.00	285.00	149.00	84.00
............................................................................GTGTGATTTGTGGCAAAGTGA.............................................................................	21	1	488.00	355.00	115.00	15.00	3.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	283.00	14.00	100.00	105.00	64.00
............................................................................GTGTGATTTGTGGCAAAGTGAT............................................................................	22	1	235.00	100.00	119.00	14.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	156.00	33.00	61.00	51.00	11.00
............................................................................GTGTGATTTGTGGCAAAGTG..............................................................................	20	1	144.00	74.00	61.00	9.00	0.00
............................................................................GTGTGATTTGTGGCAAAGT...............................................................................	19	1	66.00	48.00	16.00	1.00	1.00
........................................................TGTA-CTGGACATTTTGGGT..................................................................................................	19	1	57.00	7.00	44.00	3.00	3.00
.............................................................................TGTGATTTGTGGCAAAGTGA.............................................................................	20	1	38.00	14.00	18.00	6.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATT...........................................................................	23	1	35.00	16.00	19.00	0.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGAT............................................................................	21	1	34.00	10.00	20.00	4.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATA...........................................................................	23	1	25.00	5.00	20.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	19.00	3.00	8.00	5.00	3.00
............................................................................GTGTGATTTGTGGCAAAGTGC.............................................................................	21	1	8.00	6.00	1.00	1.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATAGGT........................................................................	26	1	8.00	8.00	0.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAG................................................................................	18	1	8.00	2.00	4.00	2.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGATA...........................................................................	22	1	6.00	2.00	3.00	0.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCA--...................................	23	1	6.00	0.00	1.00	0.00	5.00
..................................................................................................................CCCATTGTTGCAAACCTCACG.......................................	21	1	6.00	0.00	5.00	1.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	6.00	0.00	2.00	4.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACTC......................................	22	1	5.00	0.00	1.00	3.00	1.00
............................................................................GTGTGATTTGTTGCAAAGTGA.............................................................................	21	1	5.00	2.00	2.00	1.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACGC......................................	21	1	5.00	0.00	0.00	4.00	1.00
............................................................................GTGTGATTTGTGGCAAAGTGATC...........................................................................	23	1	5.00	1.00	4.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACT.......................................	21	1	5.00	0.00	5.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGT.............................................................................	21	1	5.00	4.00	1.00	0.00	0.00
..................................................................................................................ACCCTTGTTGCAAACCTCACG.......................................	21	1	5.00	0.00	2.00	3.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTG..............................................................................	19	1	5.00	1.00	4.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCT--...................................	23	1	5.00	0.00	3.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCCCG.......................................	21	1	4.00	0.00	0.00	4.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACGT......................................	21	1	4.00	1.00	0.00	3.00	0.00
..................................................................................................................CCACTTGTTGCAAACCTCACG.......................................	21	1	4.00	0.00	3.00	1.00	0.00
............................................................................GTGTGATTTGTGACAAAGTGA.............................................................................	21	1	4.00	4.00	0.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	4.00	1.00	2.00	1.00	0.00
...........................................................................TGTGTGATTTGTGGCAAAGTG..............................................................................	21	1	4.00	0.00	2.00	2.00	0.00
..................................................................................................................TCCCTTGTTGCAAACCTCACG.......................................	21	1	3.00	0.00	1.00	2.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGATT...........................................................................	22	1	3.00	2.00	1.00	0.00	0.00
..................................................................................................................CCGCTTGTTGCAAACCTCACG.......................................	21	1	3.00	0.00	2.00	0.00	1.00
..................................................................................................................CCCCTTGTTTCAAACCTCACG.......................................	21	1	3.00	0.00	1.00	0.00	2.00
............................................................................GTTTGATTTGTGGCAAAGTG..............................................................................	20	1	3.00	0.00	3.00	0.00	0.00
............................................................................GTGTGATTTGCGGCAAAGTG..............................................................................	20	1	3.00	0.00	1.00	2.00	0.00
..................................................................................................................CACCTTGTTGCAAACCTCACGC......................................	22	1	3.00	0.00	3.00	0.00	0.00
............................................................................GTGTGATTTGTGTCAAAGTGA.............................................................................	21	1	3.00	1.00	1.00	1.00	0.00
..................................................................................................................CACCTTGTTGCAAACCTCACG.......................................	21	1	3.00	0.00	2.00	1.00	0.00
............................................................................GCGTGATTTGTGGCAAAGTGA.............................................................................	21	1	3.00	2.00	0.00	1.00	0.00
..................................................................................................................CCCCTGGTTGCAAACCTCACG.......................................	21	1	3.00	0.00	0.00	0.00	3.00
............................................................................GTGTGATTTGTGGCAGAGTGA.............................................................................	21	1	3.00	2.00	1.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCCCACG.......................................	21	1	3.00	0.00	0.00	3.00	0.00

dp4

TTATATCC-----CGGAT------AACTGGGTA-TCCAGGAATC----------CAGACT-GTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATATGCATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGTTGAA-TCCCACACCT----A-CACTCTCAT	Size	Hit Count	Total Norm	V112 Male body	V043 Embryo	V051 Head	M022 Male body
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	498.00	41.00	290.00	166.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	456.00	33.00	199.00	221.00	3.00
............................................................................GTGTGATTTGTGGCAAAGTG..............................................................................	20	1	142.00	103.00	3.00	35.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	116.00	31.00	37.00	48.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGAT............................................................................	22	1	88.00	42.00	17.00	28.00	1.00
............................................................................GTGTGATTTGTGGCAAAGTGA.............................................................................	21	1	66.00	42.00	6.00	18.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGAT............................................................................	21	1	42.00	15.00	5.00	22.00	0.00
............................................................................GTGTGATTTGTGGCAAAGT...............................................................................	19	1	30.00	23.00	1.00	6.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGA.............................................................................	20	1	26.00	10.00	0.00	16.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTT..............................................................................	20	1	23.00	19.00	0.00	4.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGT.............................................................................	21	1	19.00	16.00	0.00	3.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGATA...........................................................................	22	1	14.00	4.00	3.00	7.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGT.............................................................................	20	1	10.00	7.00	0.00	3.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	9.00	1.00	5.00	3.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	9.00	1.00	6.00	2.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACGC......................................	21	1	8.00	1.00	2.00	5.00	0.00
.................................................................................................................TCCCCTTGTTGCAAACCTCACG.......................................	22	1	6.00	0.00	4.00	2.00	0.00
..................................................................................................................CCACTTGTTGCAAACCTCACG.......................................	21	1	6.00	0.00	2.00	4.00	0.00
...........................................................................TGTGTGATTTGTGGCAAAGTGA.............................................................................	22	1	6.00	4.00	0.00	2.00	0.00
........................................................GACT-GTGGACATTTTGGGT..................................................................................................	19	1	5.00	1.00	4.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTTT.............................................................................	21	1	5.00	2.00	0.00	3.00	0.00
..................................................................................................................CCCCTTGTTGCAAACATCACG.......................................	21	1	4.00	0.00	2.00	2.00	0.00
...........................................................................TGTGTGATTTGTGGCAAAGTG..............................................................................	21	1	4.00	0.00	0.00	4.00	0.00
..................................................................................................................CCCCTTGTTGCCAACCTCACG.......................................	21	1	4.00	0.00	3.00	1.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTTTT............................................................................	22	1	4.00	2.00	0.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCCAACCTCACGC......................................	22	1	4.00	0.00	4.00	0.00	0.00
.....................................................................................................................CTTGTTGCAAACCTCACGC......................................	19	1	3.00	0.00	3.00	0.00	0.00
..................................................................................................................CCCCTTGCTGCAAACCTCACGC......................................	22	1	3.00	0.00	1.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCAAATCTCACGC......................................	22	1	3.00	0.00	3.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAG................................................................................	18	1	3.00	0.00	1.00	2.00	0.00
...........................................................................TGTGTGATTTGTGGCAAAGTGAT............................................................................	23	1	3.00	0.00	2.00	1.00	0.00
..................................................................................................................CCACTTGTTGCAAACCTCACGC......................................	22	1	3.00	0.00	1.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	3.00	1.00	1.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCGAACCTCACG.......................................	21	1	3.00	0.00	3.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATA...........................................................................	23	1	3.00	2.00	0.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCATACCTCACG.......................................	21	1	3.00	0.00	3.00	0.00	0.00
..................................................................................................................CCCCTTGGTGCAAACCTCACGC......................................	22	1	3.00	0.00	2.00	1.00	0.00
.................................................................................................................CCCCCTTGTTGCAAACCTCACG.......................................	22	1	3.00	0.00	3.00	0.00	0.00

droPer1

TTATATCC-----CGGAT------AACTGGGTA-TCCAGGAATC----------CAGACT-GTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATATGCATTTGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGTTGAA-TCCCACACCT----A-CACTCTCAG	Size	Hit Count	Total Norm	V111 Male body	V042 Embryo	V050 Head	V057 Head	M021 Embryo
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	589.00	10.00	98.00	215.00	245.00	21.00
............................................................................GTGTGATTTGTGGCAAAGTG..............................................................................	20	1	480.00	432.00	2.00	17.00	27.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	465.00	4.00	33.00	137.00	267.00	24.00
............................................................................GTGTGATTTGTGGCAAAGTGA.............................................................................	21	1	331.00	285.00	2.00	13.00	31.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGAT............................................................................	22	1	238.00	179.00	6.00	17.00	36.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTT..............................................................................	20	1	187.00	156.00	0.00	9.00	18.00	4.00
............................................................................GTGTGATTTGTGGCAAAGTGT.............................................................................	21	1	143.00	132.00	0.00	5.00	6.00	0.00
............................................................................GTGTGATTTGTGGCAAAGT...............................................................................	19	1	141.00	121.00	1.00	5.00	14.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGAT............................................................................	21	1	119.00	62.00	1.00	11.00	45.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	105.00	4.00	6.00	39.00	56.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGA.............................................................................	20	1	79.00	43.00	0.00	9.00	27.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	27.00	1.00	4.00	9.00	12.00	1.00
............................................................................GTGTGATTTGTGGCAAAGTTT.............................................................................	21	1	26.00	22.00	0.00	2.00	2.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGTT............................................................................	22	1	17.00	15.00	0.00	0.00	2.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGT.............................................................................	20	1	17.00	10.00	0.00	2.00	5.00	0.00
...........................................................................TGTGTGATTTGTGGCAAAGTGAT............................................................................	23	1	15.00	10.00	2.00	1.00	2.00	0.00
...........................................................................TGTGTGATTTGTGGCAAAGTGA.............................................................................	22	1	15.00	6.00	1.00	2.00	6.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATA...........................................................................	23	1	14.00	9.00	2.00	1.00	0.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	13.00	2.00	0.00	5.00	6.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTG..............................................................................	19	1	11.00	7.00	0.00	1.00	3.00	0.00
............................................................................GTGTGATTTGTGGCAAAG................................................................................	18	1	10.00	5.00	1.00	3.00	1.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGATA...........................................................................	22	1	10.00	3.00	1.00	4.00	2.00	0.00
........................................................GACT-GTGGACATTTTGGGT..................................................................................................	19	1	10.00	9.00	0.00	1.00	0.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACGC......................................	21	1	9.00	0.00	2.00	1.00	6.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTC..............................................................................	20	1	7.00	6.00	0.00	1.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGTC............................................................................	22	1	6.00	6.00	0.00	0.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATT...........................................................................	23	1	6.00	5.00	0.00	0.00	1.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGAA............................................................................	22	1	6.00	5.00	0.00	0.00	1.00	0.00
.................................................................................................................TCCCCTTGTTGCAAACCTCACG.......................................	22	1	5.00	0.00	1.00	2.00	2.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	5.00	0.00	1.00	1.00	3.00	0.00
..................................................................................................................CACCTTGTTGCAAACCTCACG.......................................	21	1	5.00	0.00	0.00	3.00	2.00	0.00
..................................................................................................................TCCCTTGTTGCAAACCTCACGC......................................	22	1	4.00	0.00	0.00	1.00	3.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATATGC........................................................................	26	1	4.00	4.00	0.00	0.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCT--...................................	23	1	4.00	0.00	1.00	2.00	1.00	0.00
..................................................................................................................CCCCTTGGTGCAAACCTCACGC......................................	22	1	4.00	0.00	0.00	1.00	3.00	0.00
..................................................................................................................CCCCTTGGTGCAAACCTCACG.......................................	21	1	4.00	0.00	1.00	0.00	3.00	0.00
..................................................................................................................CCCCTTGTTGCAAACATCACG.......................................	21	1	3.00	0.00	0.00	0.00	3.00	0.00
............................................................................GTGTGATTTGTAGCAAAGTGA.............................................................................	21	1	3.00	3.00	0.00	0.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTTA.............................................................................	21	1	3.00	2.00	0.00	0.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCATACCTCACGC......................................	22	1	3.00	0.00	0.00	0.00	3.00	0.00
..................................................................................................................CCCCTTGTTGCAACCCTCACG.......................................	21	1	3.00	0.00	0.00	0.00	3.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATATG.........................................................................	25	1	3.00	3.00	0.00	0.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATTC..........................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
..................................................................................................................CCACTTGTTGCAAACCTCACG.......................................	21	1	3.00	0.00	1.00	0.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCACACCTCACGC......................................	22	1	3.00	0.00	1.00	0.00	1.00	1.00
..................................................................................................................CCCCTCGTTGCAAACCTCACG.......................................	21	1	3.00	0.00	0.00	1.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACTC......................................	22	1	3.00	0.00	0.00	2.00	1.00	0.00
..................................................................................................................CACCTTGTTGCAAACCTCACGC......................................	22	1	3.00	0.00	1.00	0.00	2.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTA..............................................................................	20	1	3.00	1.00	0.00	0.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCATACCTCACG.......................................	21	1	3.00	0.00	1.00	0.00	2.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTTTT............................................................................	22	1	3.00	2.00	0.00	0.00	1.00	0.00
..................................................................................................................CCCCTGGGTGCAAACCTCACGC......................................	22	1	3.00	0.00	0.00	0.00	3.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGTA............................................................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00

droWil1

CTAAA---TATCTTAAGT------ACATTTGT--TTAGTTA----------AAACGAATT-GTGGGCATTTCGGGCGTGTGATTTGTAGCAAAGTGATATGTACTTGAT--AATCCCCTTGTTGCAAACCTCACGCCGGAAAGATGTC-TC-CAAATAC----ATCAGT---CG	Size	Hit Count	Total Norm	V117 Male body	V118 Embryo	V119 Head	M020 Head
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	1624.00	23.00	712.00	693.00	196.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	1583.00	41.00	646.00	403.00	493.00
............................................................................GTGTGATTTGTAGCAAAGTGAT............................................................................	22	1	757.00	55.00	301.00	172.00	229.00
............................................................................GTGTGATTTGTAGCAAAGTGA.............................................................................	21	1	226.00	32.00	116.00	43.00	35.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	211.00	14.00	97.00	98.00	2.00
............................................................................GTGTGATTTGTAGCAAAGTGATA...........................................................................	23	1	81.00	2.00	22.00	4.00	53.00
............................................................................GTGTGATTTGTAGCAAAGTGATT...........................................................................	23	1	62.00	6.00	19.00	5.00	32.00
............................................................................GTGTGATTTGTAGCAAAGTG..............................................................................	20	1	56.00	6.00	19.00	29.00	2.00
.............................................................................TGTGATTTGTAGCAAAGTGATA...........................................................................	22	1	51.00	1.00	36.00	2.00	12.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	40.00	2.00	10.00	19.00	9.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCT.....................................	23	1	34.00	0.00	13.00	12.00	9.00
.............................................................................TGTGATTTGTAGCAAAGTGAT............................................................................	21	1	27.00	3.00	12.00	9.00	3.00
...................................................................................................................CCCTTGTTGCAAACCTCACGC......................................	21	1	25.00	1.00	14.00	8.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	24.00	6.00	8.00	9.00	1.00
............................................................................GTGTGATTTGTAGCAAAGTGATC...........................................................................	23	1	23.00	3.00	0.00	3.00	17.00
............................................................................GTGTGATTTGTAGCAAAGT...............................................................................	19	1	21.00	13.00	4.00	0.00	4.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCC.....................................	23	1	19.00	0.00	4.00	0.00	15.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	17.00	0.00	10.00	7.00	0.00
............................................................................GTGTGATTTGTAGCAAAGTGAC............................................................................	22	1	12.00	1.00	0.00	1.00	10.00
......................................................CGAATT-GTGGGCATTTCGGGC..................................................................................................	21	1	10.00	0.00	4.00	2.00	4.00
..................................................................................................................CCCATTGTTGCAAACCTCACG.......................................	21	1	10.00	0.00	6.00	4.00	0.00
..................................................................................................................CACCTTGTTGCAAACCTCACG.......................................	21	1	9.00	0.00	6.00	3.00	0.00
........................................................AATT-GTGGGCATTTCGGGC..................................................................................................	19	1	9.00	0.00	3.00	3.00	3.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCA.....................................	23	1	8.00	0.00	7.00	0.00	1.00
............................................................................GTGTGATTTGTAGCAAAG................................................................................	18	1	7.00	0.00	0.00	0.00	7.00
..................................................................................................................CCCCTTGTTGCAAAACTCACGC......................................	22	1	7.00	0.00	1.00	6.00	0.00
.............................................................................TGTGATTTGTAGCAAAGTGA.............................................................................	20	1	7.00	2.00	2.00	2.00	1.00
............................................................................GTGTGATTTGTAGCAAAGTGG.............................................................................	21	1	6.00	0.00	0.00	0.00	6.00
.........................................................ATT-GTGGGCATTTCGGGC..................................................................................................	18	1	6.00	0.00	2.00	2.00	2.00
............................................................................GTGTGATTTGTAGCAAAGTGAA............................................................................	22	1	6.00	1.00	3.00	0.00	2.00
...................................................................................................................CCCTTGTTGCAAACCTCACGT......................................	21	1	6.00	1.00	3.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCCCACGC......................................	22	1	5.00	0.00	2.00	2.00	1.00
.......................................................GAATT-GTGGGCATTTCGGGC..................................................................................................	20	1	5.00	0.00	0.00	2.00	3.00
..............................................................................GTGATTTGTAGCAAAGTGAT............................................................................	20	1	5.00	0.00	1.00	0.00	4.00
..................................................................................................................CCCCTTGTTGCAAACCTCCCG.......................................	21	1	5.00	0.00	2.00	3.00	0.00
..................................................................................................................CCACTTGTTGCAAACCTCACG.......................................	21	1	4.00	0.00	0.00	4.00	0.00
..................................................................................................................CCCATTGTTGCAAACCTCACGC......................................	22	1	4.00	0.00	4.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAAACTCACG.......................................	21	1	4.00	0.00	0.00	4.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCAAGC......................................	22	1	4.00	0.00	1.00	3.00	0.00
..................................................................................................................CCCCTTGCTGCAAACCTCACG.......................................	21	1	4.00	0.00	2.00	1.00	1.00
............................................................................GTGTGATTTGTAGCAAGGTGAT............................................................................	22	1	4.00	0.00	0.00	3.00	1.00
...................................................................................................................CCCTTGTTGCAAACCTCACGCT.....................................	22	1	3.00	0.00	1.00	2.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTG..............................................................................	20	1	3.00	0.00	0.00	0.00	3.00
....................................................................................................................CCTTGTTGCAAACCTCACG.......................................	19	1	3.00	0.00	2.00	1.00	0.00
............................................................................GTGTGATTTGTAGCAAAGAGAT............................................................................	22	1	3.00	0.00	2.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACC.......................................	21	1	3.00	0.00	1.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCAGACCTCACGC......................................	22	1	3.00	0.00	0.00	2.00	1.00
..................................................................................................................CCCCTTGTTGAAAACCTCACG.......................................	21	1	3.00	0.00	0.00	3.00	0.00
..................................................................................................................CCCCTTGTCGCAAACCTCACGC......................................	22	1	3.00	0.00	2.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCAA....................................	24	1	3.00	0.00	3.00	0.00	0.00
..................................................................................................................CCACTTGTTGCAAACCTCACGC......................................	22	1	3.00	0.00	3.00	0.00	0.00
...................................................................................................................CCCCTxTTGCAAACCTCACG.......................................	19	1	3.00	1.00	1.00	1.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGA.............................................................................	21	1	3.00	1.00	2.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGA......................................	22	1	3.00	0.00	2.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACT.......................................	21	1	3.00	0.00	2.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCG.....................................	23	1	3.00	0.00	0.00	3.00	0.00
..................................................................................................................CCCCTTGTTCCAAACCTCACG.......................................	21	1	3.00	0.00	2.00	1.00	0.00
..................................................................................................................CCCCTTTTTGCAAACCTCACGC......................................	22	1	3.00	0.00	2.00	1.00	0.00
.....................................................ACGAATT-GTGGGCATTTCGGGC..................................................................................................	22	1	3.00	0.00	0.00	2.00	1.00
..................................................................................................................CCCCTTGTTGAAAACCTCACGC......................................	22	1	3.00	0.00	0.00	3.00	0.00
..................................................................................................................CACCTTGTTGCAAACCTCACGC......................................	22	1	3.00	0.00	1.00	2.00	0.00

droVir3

TTTAT---GCA--CAGAT----CAT-------GTCCAGAGTGTGTA--------ATATAT-CTGCGCATTTTGGGCGTGTGATTTGTGGCAAAGTGATGAGC-TTGGATTCCATCCCCTTGTTGCAAACCTCACGCC--AAAGGTGGCGCATTTAACCA----G-CAATATAAA	Size	Hit Count	Total Norm	V116 Male body	V053 Unknown	V047 Embryo	M027 Male body	M028 Head
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	427.00	57.00	202.00	51.00	29.00	88.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	415.00	34.00	125.00	49.00	46.00	161.00
............................................................................GTGTGATTTGTGGCAAAGTGA.............................................................................	21	1	77.00	46.00	27.00	3.00	0.00	1.00
............................................................................GTGTGATTTGTGGCAAAGTGAT............................................................................	22	1	75.00	50.00	13.00	7.00	0.00	5.00
.........................................................TAT-CTGCGCATTTTGGGC..................................................................................................	18	1	72.00	0.00	1.00	0.00	9.00	62.00
............................................................................GTGTGATTTGTGGCAAAGTGATC...........................................................................	23	1	52.00	29.00	3.00	0.00	5.00	15.00
............................................................................GTGTGATTTGTGGCAAAGTG..............................................................................	20	1	43.00	29.00	13.00	0.00	0.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	42.00	22.00	8.00	10.00	0.00	2.00
........................................................ATAT-CTGCGCATTTTGGGC..................................................................................................	19	1	40.00	1.00	4.00	1.00	4.00	30.00
.............................................................................TGTGATTTGTGGCAAAGTGATG...........................................................................	22	1	38.00	17.00	9.00	12.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	21.00	5.00	6.00	1.00	1.00	8.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCT--...................................	23	1	18.00	2.00	3.00	4.00	4.00	5.00
.............................................................................TGTGATTTGTGGCAAAGTGAT............................................................................	21	1	13.00	9.00	3.00	1.00	0.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGA.............................................................................	20	1	12.00	4.00	8.00	0.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATA...........................................................................	23	1	10.00	5.00	0.00	3.00	2.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGATT...........................................................................	23	1	7.00	7.00	0.00	0.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGT...............................................................................	19	1	6.00	1.00	1.00	2.00	0.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCC--...................................	23	1	6.00	0.00	0.00	1.00	3.00	2.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCA--...................................	23	1	5.00	0.00	2.00	2.00	1.00	0.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	5.00	0.00	1.00	3.00	0.00	1.00
..................................................................................................................TCCCTTGTTGCAAACCTCACG.......................................	21	1	4.00	0.00	4.00	0.00	0.00	0.00
.................................................................................................................TCCCCTTGTTGCAAACCTCACG.......................................	22	1	4.00	1.00	1.00	2.00	0.00	0.00
.......................................................TATAT-CTGCGCATTTTGGGC..................................................................................................	20	1	4.00	0.00	0.00	0.00	1.00	3.00
..................................................................................................................CCCCTTGTTGCAAACCTCCCG.......................................	21	1	4.00	1.00	2.00	1.00	0.00	0.00
..................................................................................................................CCCCTTGTTGCATACCTCACG.......................................	21	1	3.00	0.00	3.00	0.00	0.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACGCT--...................................	22	1	3.00	0.00	0.00	0.00	0.00	3.00
..................................................................................................................CCCCTTGTTGCAAACCCCACG.......................................	21	1	3.00	0.00	0.00	3.00	0.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	3.00	1.00	1.00	1.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTGT.............................................................................	21	1	3.00	3.00	0.00	0.00	0.00	0.00

droMoj3

TTCAT-TT-----TGGATAAAGACT-------ATTCGGAGTGTTATATCTATCATGTGTATTTGCGCATTTTGGTCGTGTGATTTGTGGCAAAGTGATGAGC-TATGATTCCATCCCCTTGTTGCAAACCTCACGCT--GAAGGTGACGCATAGCAGCA----A-CAATTGAAA	Size	Hit Count	Total Norm	V110 Male body	V056 Unknown	V049 Head	V041 Embryo
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	719.00	21.00	241.00	228.00	229.00
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	667.00	28.00	255.00	205.00	179.00
.............................................................................TGTGATTTGTGGCAAAGTGATG...........................................................................	22	1	417.00	204.00	96.00	44.00	73.00
.............................................................................TGTGATTTGTGGCAAAGTGAT............................................................................	21	1	253.00	100.00	95.00	41.00	17.00
............................................................................GTGTGATTTGTGGCAAAGTGAT............................................................................	22	1	169.00	105.00	31.00	12.00	21.00
.............................................................................TGTGATTTGTGGCAAAGTGA.............................................................................	20	1	162.00	63.00	61.00	33.00	5.00
............................................................................GTGTGATTTGTGGCAAAGTGA.............................................................................	21	1	84.00	52.00	11.00	8.00	13.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	74.00	13.00	32.00	16.00	13.00
.................................................................................................................TCCCCTTGTTGCAAACCTCACG.......................................	22	1	27.00	0.00	10.00	3.00	14.00
............................................................................GTGTGATTTGTGGCAAAGTGATT...........................................................................	23	1	26.00	21.00	0.00	1.00	4.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	24.00	5.00	10.00	8.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCT--...................................	23	1	21.00	2.00	5.00	5.00	9.00
............................................................................GTGTGATTTGTGGCAAAGTGATC...........................................................................	23	1	19.00	16.00	3.00	0.00	0.00
............................................................................GTGTGATTTGTGGCAAAGTG..............................................................................	20	1	19.00	9.00	7.00	2.00	1.00
.............................................................................TGTGATTTGTGGCAAAGTG..............................................................................	19	1	14.00	5.00	3.00	5.00	1.00
..................................................................................................................CCCCTTGTTGCCAACCTCACG.......................................	21	1	13.00	0.00	0.00	9.00	4.00
..................................................................................................................CCCCTTGTTGCAAACCTCCCG.......................................	21	1	9.00	0.00	2.00	5.00	2.00
..................................................................................................................CCCCTTGTTGCACACCTCACGC......................................	22	1	9.00	0.00	1.00	6.00	2.00
.............................................................................TGTGATTTGTGGCAAAGTGATC...........................................................................	22	1	8.00	8.00	0.00	0.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGATGT..........................................................................	23	1	8.00	2.00	3.00	2.00	1.00
............................................................................GTGTGATTTGTGGCAAAGTGATA...........................................................................	23	1	8.00	5.00	0.00	0.00	3.00
...................................................................................................................CCCTTGTTGCAAACCTCACGC......................................	21	1	8.00	0.00	3.00	3.00	2.00
.........................................................GTATTTGCGCATTTTGGTC..................................................................................................	19	1	7.00	1.00	0.00	0.00	6.00
..................................................................................................................CCCCTTGTTGCCAACCTCACGC......................................	22	1	6.00	0.00	0.00	5.00	1.00
............................................................................GTGTGATTTGTGGCAAAGTGATGAGC-.......................................................................	26	1	6.00	6.00	0.00	0.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGATT...........................................................................	22	1	6.00	3.00	1.00	2.00	0.00
..................................................................................................................CCCCTTGTTGCAACCCTCACGC......................................	22	1	5.00	0.00	4.00	1.00	0.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	5.00	0.00	3.00	1.00	1.00
..................................................................................................................CCCCTTGTTGCATACCTCACGC......................................	22	1	5.00	0.00	2.00	2.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	4.00	0.00	1.00	1.00	2.00
..................................................................................................................CCCCTTGTTGCACACCTCACG.......................................	21	1	4.00	0.00	2.00	1.00	1.00
..................................................................................................................TCCCTTGTTGCAAACCTCACG.......................................	21	1	4.00	0.00	2.00	1.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGCT--T..................................	24	1	4.00	0.00	1.00	2.00	1.00
.............................................................................TGTGATTTGTGGCGAAGTGA.............................................................................	20	1	3.00	0.00	3.00	0.00	0.00
.............................................................................TGTGATTTGTGGCAAAGTGATA...........................................................................	22	1	3.00	2.00	0.00	0.00	1.00
..................................................................................................................ACCCTTGTTGCAAACCTCACGC......................................	22	1	3.00	0.00	2.00	0.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGA......................................	22	1	3.00	1.00	0.00	0.00	2.00
............................................................................GTGTGATTTGTGGCAAAGT...............................................................................	19	1	3.00	1.00	1.00	0.00	1.00
.............................................................................TGTGATTTGTGGCAAATTGATG...........................................................................	22	1	3.00	1.00	2.00	0.00	0.00
..................................................................................................................CCCCTCGTTGCAAACCTCACG.......................................	21	1	3.00	0.00	0.00	2.00	1.00
..................................................................................................................CCACTTGTTGCAAACCTCACG.......................................	21	1	3.00	0.00	2.00	0.00	1.00
.................................................................................................................TCCCCTTGTTGCAAACCTCAC........................................	21	1	3.00	0.00	0.00	1.00	2.00
.............................................................................TGTGATTTGTGGCAAAGTGATGA..........................................................................	23	1	3.00	0.00	1.00	1.00	1.00
.............................................................................TGTGATTTGTGGCAAAGTGAA............................................................................	21	1	3.00	2.00	0.00	0.00	1.00
............................................................................GTGTGATTTGTGGCAAAGTGATAAA.........................................................................	25	1	3.00	2.00	0.00	0.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCGCGC......................................	22	1	3.00	0.00	1.00	2.00	0.00
..................................................................................................................CCACTTGTTGCAAACCTCACGC......................................	22	1	3.00	0.00	3.00	0.00	0.00
..................................................................................................................CCCCTCGTTGCAAACCTCACGC......................................	22	1	3.00	0.00	0.00	1.00	2.00
.............................................................................TGTGATTTGTGGCAAAGTGATAA..........................................................................	23	1	3.00	0.00	0.00	0.00	3.00
.............................................................................TGTGATTTGTGGCACAGTGATG...........................................................................	22	1	3.00	0.00	0.00	2.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGTC--...................................	23	1	3.00	1.00	1.00	1.00	0.00

droGri2

TTCTTTTAAAG-----------CATATTAA--ATTCCGAGTGTG----------GTATTT-CTGTGCATTTTGGGCGTGTGATTTGTGGCAAAGTGATGAGCT--TGATTCCATCCCCTTGTTGCAAACCTCACGCC--GAAGGTGGCGCATCTAAGCA----A-CAATATTAA	Size	Hit Count	Total Norm	V109 Male body
............................................................................GTGTGATTTGTGGCAAAGTGAT............................................................................	22	1	22.00	22.00
..................................................................................................................CCCCTTGTTGCAAACCTCACG.......................................	21	1	21.00	21.00
............................................................................GTGTGATTTGTGGCAAAGTGA.............................................................................	21	1	10.00	10.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGT......................................	22	1	9.00	9.00
..................................................................................................................CCCCTTGTTGCAAACCTCACGC......................................	22	1	7.00	7.00
............................................................................GTGTGATTTGTGGCAAAGTGATT...........................................................................	23	1	3.00	3.00
..................................................................................................................CCCCTTGTTGCAAACCTCAC........................................	20	1	2.00	2.00
.............................................................................TGTGATTTGTGGCAAAGTGATG...........................................................................	22	1	2.00	2.00
............................................................................TTGTGATTTGTGGCAAAGTGAT............................................................................	22	1	1.00	1.00
.............................................................................TGTGATTTGTGGCAAAGTGA.............................................................................	20	1	1.00	1.00
...................................................................................................................CCCTTGTTGCAAACCTCACG.......................................	20	1	1.00	1.00
..................................................................................................................CCCCTTGTTGCxAACCTCACG.......................................	20	1	1.00	1.00
............................................................................GTGTGATTTGTGGCAAAGTG..............................................................................	20	1	1.00	1.00
............................................................................GTGCGATTTGTGGCAAAGTGAT............................................................................	22	1	1.00	1.00
............................................................................GTGTGATTTGTGGCAAAGTGATAAA.........................................................................	25	1	1.00	1.00
............................................................................GGGTGATTTGTGGCAAAGTGAT............................................................................	22	1	1.00	1.00
.............................................................................TGTGATTTGTGGCAAAGTGAT............................................................................	21	1	1.00	1.00
............................................................................GTGTGATTTGTGGCAAAGTGATTT..........................................................................	24	1	1.00	1.00
..................................................................................................................CCCCTTGTTGCAAACCTCA.........................................	19	1	1.00	1.00

12-way Secondary Structure

	dm3	droSim1	droSec1	droYak2	droEre2	droAna3	dp4	droPer1	droWil1	droVir3	droMoj3	droGri2
RNAfold Image
UNAFold Image

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