dme-mir-280- Best orthologs

dme-mir-280	chr2R:4185611-4185705 +	Known_mirbase
[View on miRBase]	[View on UCSC Genome Browser {Cornell Mirror}]	intergenic

Legend:

   mature strand at position 4185665-4185687
   star strand at position 4185620-4185646
   mutations
   read mismatches

Notes: The simulans ortholog lies in an unassembled portition of the genome at position chr2R:2844465-2844618

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

Visually pleasing best hits from LASTZ and MAF

Species	Coordinate	Source	Confidence	Alignment
dm3	chr2R:4185596-4185720 +		1	CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTAT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTC-----------CAC-------ACTGCACTCGC-CGCCTCGA
droSim1	chrX:11649338-11649479 +	LASTZ	4	CGTAGGA-------------------T-GGG--------------------------------------------------------------------------------------------------------------------------------------------------------------------ATG---------GAGGGG-----------------GGTTT---GTCAACTCGAACGTGCCTCGCATGCCAATGGAATGCTTATCAAAGTATATAAAATTCATAGAAATTATGACGCGAGCGCAGAAAGT--TGCAAGAA---------------------------A--------AAGACGTT--------------------------TGACGT-TGACACAA
droSec1	super_1:1832273-1832397 +	LASTZ	4	CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CAC-------ACTGCACTCGC-CGCCTCGA
droYak2	chr2L:16840791-16840915 +	LASTZ	4	CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAACTT---------------------------G--------AGGTCCTG-----------CAC-------ACTGCACTCTC-CCGCTCGA
droEre2	scaffold_4929:18446687-18446817 -	LASTZ	4	CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCAG-----------CACACTGCACACTGCACTTGC-C-CCTCGA
droEug1	scf7180000409275:13517-13673 -	LASTZ	4	TTGATAT-------------------G-TGT----G---TGCCTG--------------------------------TGTTT-----G------------------------------------------------------------------------------------------------------------T-GTAGATATGTGTGTG-----------------TGTGA---ACTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTC-----------CGC-------ACTGCAATCGC-CTCCTCAA
droBia1	scf7180000302291:2050742-2050880 +	LASTZ	4	TTGATGT-------------------G-AGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TCG-------AGCTCGTG-----------------TGCGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CTC-------GCTGCATCCGA-CCCCTGGA
droTak1	scf7180000415627:54525-54663 +	LASTZ	4	TTGATGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------AGCTCTTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CAC-------ACTGCAATCGT-CCCCTGGA
droEle1	scf7180000491240:998892-999030 +	LASTZ	4	TTGATGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------TGCTCGTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CAT-------ACTGCAATATC-CCCCTGGA
droRho1	scf7180000770177:298029-298165 +	LASTZ	4	TTGATGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------TGCCAGTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAA-TC---------------------------G--------AGGTCCTG-----------TAC-------ACTGCAGCCGT-C-CCTGGA
droFic1	scf7180000453215:11307-11444 -	LASTZ	4	TTGACGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------TGGCCGTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTACA--TGCAGGCC---------------------------G--------AGCTTTTG-----------CTT-------GCTGCAACCGC-C-CCTCGA
droKik1	scf7180000302277:32197-32350 +	LASTZ	4	TTGATGT-------------------G-TGT----G---CGTGTG--------------------------------AGTGTGCTGG---------TGT--TTG----------------------------------------------------------------------------------------TGTTTG-------TGCTCGTG-----------------TGTGAGCTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTACA--TGCAG------------------------------------------------------------C-------ACTGCAATCGG-CTCCTTGA
droAna3	scaffold_13266:1806990-1807233 -	LASTZ	4	TTGAAAT-------------------G-TGT----G---TATGTG--------------------------------GGTGGGTGGG---------TGTGTGTGCACT---------------------TTCTGCCATCCAGACTGCCAGCCAGCCATCTAGCCAGCCTGCCTGACTGCTTTCCTTGCCACTTGTGT-GTATGTGTGTGTGTG-----------------TATGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAG------------------------------------------CCTGAACAACTTTGGAAC-------ACTGCAATCGC-CTTCTGGA
droBip1	scf7180000396730:2797214-2797452 -	LASTZ	4	TTGATAT-------------------G-TGT----G---TGGGTG--------------------------------TAGCTGGG-----------AATGTGTGCACT---------------------TTCTGCCATCCAGACTTCCAGCCAGCTAGCCAGCCAGCCTGCCTGCCATCTAGCCTTCCTGCCTGTGT-----GTGTGTGTGTG-----------------TATG--GAGATGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAG------------------------------------------CCTGAACAACTTTGGAAC-------ACTGCAATCGC-TTTCTGGA
dp4	chr3:2170016-2170201 +	MAF	4	TTGATGC-------------------C-tgt----g---tgtgtg--------------------------------tgtgt-------------gtgtgtgtCCAGTCGGTGTCATGAGGCGTATGCC-----------------------------------------------------------------------GTGTGTGTGTGTG-----------------TGTGA---GACGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATG--TGCAGCTG---------------------------A--------AGAGCCTG-----------TCC-------ATTGCACAATC-C-CCACCC
droPer1	super_2:2339680-2339867 +	MAF	4	TTGATGC-------------------C-TGT----G---TGTGTG--------------------------------TGTGT---------------GTGCGTCCAGTCGGTGTCATGAGGCGTATGCC------------------------------------------------------------------gt-gtgtgtgtgtgtgtg-----------------tgtgA---GACGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATG--TGCAGCTG---------------------------A--------AGAGCCTG-----------TCC-------ATTGCACAATC-C-CCTCCC
droWil1	scaffold_180701:589914-590141 +	MAF	4	TTGATGCCCCAACACACACCCACCTCC-TAT----C---TATCTATCTATCTCTGTCTCACCATAACTGA-----------------g------------------------------------------------------------------------------------------------------------t-gtgtgtgtgtgtgtg-----------------tgtat---gtTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATG--TGCAACCGAAGCAGCAGAAGCCAGGCC--CAAGTAGAAGCAA--AAGGCCTG-----------AAC-------ATTGCACTTGGGCCATACGC
droVir3	scaffold_12875:9206154-9206327 +	MAF	4	TTGATGT-------------------CGTCTTTGTGTGCCATGTG--------------------------------TGTGT-------------GTGTGTGTCCA------------------------------------------------------------------------------------------------------TTTTG-----------------TGTGT---GTTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATACATGCCAGA----------------------GCAGTGCATGCAACT----GC-C-----------CAC-------AATGCACATTT-CTATCCGC
droMoj3	scaffold_6496:17934933-17935113 -	MAF	4	TTGATGT-------------------CGTCGTTGTGTACCATG--------CATTCG----------TGTGTGCCTGT-----------------GT--------------------------------------------------------------------------------------------------GTG-------TG----CG-----------------TGTGT---GTTAGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATACATGCCAG------------------GCCGGCCAGTGCATGCAACT----TC-T-----------CTCAATGCATATTCCAATCC--------AC
droGri2	scaffold_15245:2520625-2520797 +	MAF	4	TTGATGT-------------------TGTCGTTGAGT-CTAtg--------tctgtg----------tgt-----------------gtgtgtgtgt--------------------------------------------------------------------------------------------------gt-----------gtgtgtgcgagtgtCCAGTTCGTGTGT---GTTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATACATGCAACT-----------------------------------------CCTT-----------CTC-------AATGGATCCCC-------AC

Legend

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

Re-alignment after removal of non-confident orthologs

Species	Alignment
dm3	CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTAT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTC-----------CAC-------ACTGCACTCGC-CGCCTCGA
droSim1	CGTAGGA-------------------T-GGG--------------------------------------------------------------------------------------------------------------------------------------------------------------------ATG---------GAGGGG-----------------GGTTT---GTCAACTCGAACGTGCCTCGCATGCCAATGGAATGCTTATCAAAGTATATAAAATTCATAGAAATTATGACGCGAGCGCAGAAAGT--TGCAAGAA---------------------------A--------AAGACGTT--------------------------TGACGT-TGACACAA
droSec1	CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CAC-------ACTGCACTCGC-CGCCTCGA
droYak2	CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAACTT---------------------------G--------AGGTCCTG-----------CAC-------ACTGCACTCTC-CCGCTCGA
droEre2	CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCAG-----------CACACTGCACACTGCACTTGC-C-CCTCGA
droEug1	TTGATAT-------------------G-TGT----G---TGCCTG--------------------------------TGTTT-----G------------------------------------------------------------------------------------------------------------T-GTAGATATGTGTGTG-----------------TGTGA---ACTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTC-----------CGC-------ACTGCAATCGC-CTCCTCAA
droBia1	TTGATGT-------------------G-AGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TCG-------AGCTCGTG-----------------TGCGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CTC-------GCTGCATCCGA-CCCCTGGA
droTak1	TTGATGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------AGCTCTTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CAC-------ACTGCAATCGT-CCCCTGGA
droEle1	TTGATGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------TGCTCGTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CAT-------ACTGCAATATC-CCCCTGGA
droRho1	TTGATGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------TGCCAGTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAA-TC---------------------------G--------AGGTCCTG-----------TAC-------ACTGCAGCCGT-C-CCTGGA
droFic1	TTGACGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------TGGCCGTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTACA--TGCAGGCC---------------------------G--------AGCTTTTG-----------CTT-------GCTGCAACCGC-C-CCTCGA
droKik1	TTGATGT-------------------G-TGT----G---CGTGTG--------------------------------AGTGTGCTGG---------TGT--TTG----------------------------------------------------------------------------------------TGTTTG-------TGCTCGTG-----------------TGTGAGCTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTACA--TGCAG------------------------------------------------------------C-------ACTGCAATCGG-CTCCTTGA
droAna3	TTGAAAT-------------------G-TGT----G---TATGTG--------------------------------GGTGGGTGGG---------TGTGTGTGCACT---------------------TTCTGCCATCCAGACTGCCAGCCAGCCATCTAGCCAGCCTGCCTGACTGCTTTCCTTGCCACTTGTGT-GTATGTGTGTGTGTG-----------------TATGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAG------------------------------------------CCTGAACAACTTTGGAAC-------ACTGCAATCGC-CTTCTGGA
droBip1	TTGATAT-------------------G-TGT----G---TGGGTG--------------------------------TAGCTGGG-----------AATGTGTGCACT---------------------TTCTGCCATCCAGACTTCCAGCCAGCTAGCCAGCCAGCCTGCCTGCCATCTAGCCTTCCTGCCTGTGT-----GTGTGTGTGTG-----------------TATG--GAGATGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAG------------------------------------------CCTGAACAACTTTGGAAC-------ACTGCAATCGC-TTTCTGGA
dp4	TTGATGC-------------------C-tgt----g---tgtgtg--------------------------------tgtgt-------------gtgtgtgtCCAGTCGGTGTCATGAGGCGTATGCC-----------------------------------------------------------------------GTGTGTGTGTGTG-----------------TGTGA---GACGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATG--TGCAGCTG---------------------------A--------AGAGCCTG-----------TCC-------ATTGCACAATC-C-CCACCC
droPer1	TTGATGC-------------------C-TGT----G---TGTGTG--------------------------------TGTGT---------------GTGCGTCCAGTCGGTGTCATGAGGCGTATGCC------------------------------------------------------------------gt-gtgtgtgtgtgtgtg-----------------tgtgA---GACGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATG--TGCAGCTG---------------------------A--------AGAGCCTG-----------TCC-------ATTGCACAATC-C-CCTCCC
droWil1	TTGATGCCCCAACACACACCCACCTCC-TAT----C---TATCTATCTATCTCTGTCTCACCATAACTGA-----------------g------------------------------------------------------------------------------------------------------------t-gtgtgtgtgtgtgtg-----------------tgtat---gtTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATG--TGCAACCGAAGCAGCAGAAGCCAGGCC--CAAGTAGAAGCAA--AAGGCCTG-----------AAC-------ATTGCACTTGGGCCATACGC
droVir3	TTGATGT-------------------CGTCTTTGTGTGCCATGTG--------------------------------TGTGT-------------GTGTGTGTCCA------------------------------------------------------------------------------------------------------TTTTG-----------------TGTGT---GTTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATACATGCCAGA----------------------GCAGTGCATGCAACT----GC-C-----------CAC-------AATGCACATTT-CTATCCGC
droMoj3	TTGATGT-------------------CGTCGTTGTGTACCATG--------CATTCG----------TGTGTGCCTGT-----------------GT--------------------------------------------------------------------------------------------------GTG-------TG----CG-----------------TGTGT---GTTAGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATACATGCCAG------------------GCCGGCCAGTGCATGCAACT----TC-T-----------CTCAATGCATATTCCAATCC--------AC
droGri2	TTGATGT-------------------TGTCGTTGAGT-CTAtg--------tctgtg----------tgt-----------------gtgtgtgtgt--------------------------------------------------------------------------------------------------gt-----------gtgtgtgcgagtgtCCAGTTCGTGTGT---GTTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATACATGCAACT-----------------------------------------CCTT-----------CTC-------AATGGATCCCC-------AC

20-way Secondary Structure

	dm3	droSim1	droSec1	droYak2	droEre2	droEug1	droBia1	droTak1	droEle1	droRho1	droFic1	droKik1	droAna3	droBip1	dp4	droPer1	droWil1	droVir3	droMoj3	droGri2
RNAfold Image
UNAFold Image

Small RNA-seq read pileup

Species

Alignment

droSim1

CGTAGGA-------------------T-GGG--------------------------------------------------------------------------------------------------------------------------------------------------------------------ATG---------GAGGGG-----------------GGTTT---GTCAACTCGAACGTGCCTCGCATGCCAATGGAATGCTTATCAAAGTATATAAAATTCATAGAAATTATGACGCGAGCGCAGAAAGT--TGCAAGAA---------------------------A--------AAGACGTT--------------------------TGACGT-TGACACAA	Size	Hit Count	Total Norm	V044 Embryo	M023 Head	M024 Male body	M025 Embryo
.......................................................................................................................................................................................................................................CTTC---GTCAACTCGAACGT.......................................................................................................................................................................	18	1	1.00	0.00	0.00	0.00	1.00
.........................................................................................................................................................................................................................................................................................................................................AAGAA---------------------------A--------ATGACxTT--------------------------TGACGT-........	19	1	1.00	0.00	0.00	1.00	0.00

droSec1

CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CAC-------ACTGCACTCGC-CGCCTCGA

Size

Hit Count

Total Norm

V113
Male body

V114
Embryo

V115
Head

droYak2

CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAACTT---------------------------G--------AGGTCCTG-----------CAC-------ACTGCACTCTC-CCGCTCGA	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
...................................................................................................................................................................................................................................................CTTAAATGTATTTACGTT..............................................................................................................................................................	18	2	0.50	0.00	0.50	0.00	0.00	0.00

droEre2

CTGACGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGT---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCAG-----------CACACTGCACACTGCACTTGC-C-CCTCGA	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
.....GT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGxAT---GCTGGCTTTTG..........................................................................................................................................................................	18	1	1.00	0.00	0.00	0.00	1.00
.......................................................................................................................................................................................................................................GTGT---GCTGGATGTTATGT.......................................................................................................................................................................	18	1	1.00	0.00	0.00	0.00	1.00
..........................................................................................................................................................................................................................................................................................TTATACAGATTATTTTA-------------T..........................................................................................................	18	1	1.00	1.00	0.00	0.00	0.00
.TGCCGT-------------------G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------xGTGT---GCTGGCTTT............................................................................................................................................................................	20	1	1.00	1.00	0.00	0.00	0.00

droEug1

TTGATAT-------------------G-TGT----G---TGCCTG--------------------------------TGTTT-----G------------------------------------------------------------------------------------------------------------T-GTAGATATGTGTGTG-----------------TGTGA---ACTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTC-----------CGC-------ACTGCAATCGC-CTCCTCAA

Size

Hit Count

Total Norm

droBia1

TTGATGT-------------------G-AGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TCG-------AGCTCGTG-----------------TGCGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CTC-------GCTGCATCCGA-CCCCTGGA

Size

Hit Count

Total Norm

droTak1

TTGATGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------AGCTCTTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CAC-------ACTGCAATCGT-CCCCTGGA

Size

Hit Count

Total Norm

droEle1

TTGATGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------TGCTCGTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAGTC---------------------------G--------AGGTCCTG-----------CAT-------ACTGCAATATC-CCCCTGGA

Size

Hit Count

Total Norm

droRho1

TTGATGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------TGCCAGTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAA-TC---------------------------G--------AGGTCCTG-----------TAC-------ACTGCAGCCGT-C-CCTGGA

Size

Hit Count

Total Norm

droFic1

TTGACGT-------------------G-TGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------TTG-------TGGCCGTG-----------------TGTGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTACA--TGCAGGCC---------------------------G--------AGCTTTTG-----------CTT-------GCTGCAACCGC-C-CCTCGA

Size

Hit Count

Total Norm

droKik1

TTGATGT-------------------G-TGT----G---CGTGTG--------------------------------AGTGTGCTGG---------TGT--TTG----------------------------------------------------------------------------------------TGTTTG-------TGCTCGTG-----------------TGTGAGCTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTACA--TGCAG------------------------------------------------------------C-------ACTGCAATCGG-CTCCTTGA

Size

Hit Count

Total Norm

droAna3

TTGAAAT-------------------G-TGT----G---TATGTG--------------------------------GGTGGGTGGG---------TGTGTGTGCACT---------------------TTCTGCCATCCAGACTGCCAGCCAGCCATCTAGCCAGCCTGCCTGACTGCTTTCCTTGCCACTTGTGT-GTATGTGTGTGTGTG-----------------TATGA---GCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAG------------------------------------------CCTGAACAACTTTGGAAC-------ACTGCAATCGC-CTTCTGGA	Size	Hit Count	Total Norm	V105 Male body	V106 Head	V055 Unknown	V039 Embryo
..........................................GTG--------------------------------GGTGGTTGGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	3099.00	142.00	2940.00	17.00	0.00
..........................................GTG--------------------------------GGTGGATGGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	658.00	14.00	639.00	5.00	0.00
..........................................GTG--------------------------------GGTGGGTGGT---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	374.00	8.00	364.00	2.00	0.00
..........................................GTG--------------------------------GGTGGGTGGA---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	162.00	4.00	158.00	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGG---------TGGTT..............................................................................................................................................................................................................................................................................................................................	18	1	136.00	8.00	128.00	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGT---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	19	1	72.00	5.00	67.00	0.00	0.00
..............................................................................GTGGGTGGG---------TGGGTGTCC..........................................................................................................................................................................................................................................................................................................................	18	3	23.00	0.33	22.67	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGG---------TGTCC..............................................................................................................................................................................................................................................................................................................................	18	3	23.00	0.33	22.67	0.00	0.00
..........................................GTG--------------------------------GGTGGATGGG---------TGGGTGT............................................................................................................................................................................................................................................................................................................................	20	1	56.00	5.00	50.00	1.00	0.00
..........................................GTG--------------------------------GGTGGGTGGG---------TGGCT..............................................................................................................................................................................................................................................................................................................................	18	1	45.00	0.00	45.00	0.00	0.00
..........................................GTG--------------------------------GGTCGGTGGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	45.00	1.00	44.00	0.00	0.00
..............................................................................GTGGGTGGG---------TGTGTGGCC..........................................................................................................................................................................................................................................................................................................................	18	1	39.00	0.00	39.00	0.00	0.00
..........................................GTG--------------------------------GGTGGGTCGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	27.00	0.00	27.00	0.00	0.00
..........................................GTG--------------------------------GGTGGATGGG---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	19	1	26.00	1.00	25.00	0.00	0.00
..............................................................................GTGGGTGGG---------TGxGTGGGCA.........................................................................................................................................................................................................................................................................................................................	18	1	25.00	0.00	25.00	0.00	0.00
...................................G---TGTGTG--------------------------------GTTGGGTGGG---------T..................................................................................................................................................................................................................................................................................................................................	18	1	20.00	0.00	20.00	0.00	0.00
...........................................TG--------------------------------GGTGGGTGGG---------TGGTTG.............................................................................................................................................................................................................................................................................................................................	18	1	19.00	0.00	19.00	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGA---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	19	1	15.00	0.00	14.00	1.00	0.00
..........................................GTG--------------------------------GGTGGGTxGG---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	18	5	3.00	0.00	3.00	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGC---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	13.00	0.00	13.00	0.00	0.00
.........................................TGxG--------------------------------GGTGGGTGGG---------TGTGTGG............................................................................................................................................................................................................................................................................................................................	20	1	13.00	0.00	12.00	1.00	0.00
..........................................GTG--------------------------------GGTGGTTGGG---------TGGGTGT............................................................................................................................................................................................................................................................................................................................	20	1	12.00	0.00	12.00	0.00	0.00
...........................................TG--------------------------------GGTGGGTGGT---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	18	1	12.00	1.00	11.00	0.00	0.00
...........................................TG--------------------------------GGTGGATGGG---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	18	1	12.00	0.00	12.00	0.00	0.00
...........................................TG--------------------------------GGTGGGTGGG---------TGTTGGT............................................................................................................................................................................................................................................................................................................................	19	1	11.00	0.00	11.00	0.00	0.00
..........................................GTG--------------------------------GGTGGTTGGG---------TGTGT..............................................................................................................................................................................................................................................................................................................................	18	1	11.00	1.00	10.00	0.00	0.00
..................................................................................................................................................................................................AGT-GTGTGTGTGTGTGTG-----------------.............................................................................................................................................................................................	18	27	0.41	0.04	0.37	0.00	0.00
................................................................................................................................................................................................AGTGT-GTGTGTGTGTGTG................................................................................................................................................................................................................	18	27	0.41	0.04	0.37	0.00	0.00
.................................................................................................................................................................................................GTGT-GTGTGTGTGTGTGT...............................................................................................................................................................................................................	18	20	0.50	0.00	0.50	0.00	0.00
...................................................................................................................................................................................................GT-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	18	20	0.50	0.00	0.50	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGG---------TTGGT..............................................................................................................................................................................................................................................................................................................................	18	1	9.00	1.00	8.00	0.00	0.00
..........................................GTG--------------------------------GGTGGTTGGG---------TGGG...............................................................................................................................................................................................................................................................................................................................	17	1	8.00	0.00	0.00	8.00	0.00
................................................................................................................................................................................................AGTGT-GTGTGTGTGTGTGT...............................................................................................................................................................................................................	19	22	0.36	0.00	0.36	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGT---------TGxGTGTGCA.........................................................................................................................................................................................................................................................................................................................	22	1	8.00	0.00	8.00	0.00	0.00
..................................................................................................................................................................................................AGT-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	19	22	0.36	0.00	0.36	0.00	0.00
...................................G---TGTGTG--------------------------------GATGGGTGGG---------T..................................................................................................................................................................................................................................................................................................................................	18	1	7.00	1.00	6.00	0.00	0.00
..........................................GTG--------------------------------GATGGGTGGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	7.00	0.00	7.00	0.00	0.00
..................................................................................................................................................................................................TGT-GTGTGTGTGTGTGTG-----------------.............................................................................................................................................................................................	18	23	0.30	0.00	0.30	0.00	0.00
................................................................................................................................................................................................TGTGT-GTGTGTGTGTGTG................................................................................................................................................................................................................	18	23	0.30	0.00	0.30	0.00	0.00
..........................................GTG--------------------------------GGTGGATGGG---------TGGG...............................................................................................................................................................................................................................................................................................................................	17	1	6.00	0.00	0.00	6.00	0.00
................................................................................................................................................................................................TGTGT-GTGTGTGTGTGTGT...............................................................................................................................................................................................................	19	19	0.32	0.00	0.32	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGC---------TGTGG..............................................................................................................................................................................................................................................................................................................................	18	1	6.00	0.00	6.00	0.00	0.00
...........................................TG--------------------------------GGTGGTTGGG---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	18	1	6.00	0.00	6.00	0.00	0.00
..........................................GTG--------------------------------GGTGAGTGGG---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	19	1	6.00	0.00	6.00	0.00	0.00
..................................................................................................................................................................................................TGT-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	19	19	0.32	0.00	0.32	0.00	0.00
..........................................GTG--------------------------------GTTGGGTGGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	6.00	0.00	6.00	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGG---------TGTCG..............................................................................................................................................................................................................................................................................................................................	18	1	6.00	0.00	6.00	0.00	0.00
...........................................TG--------------------------------GGTGGGTGGG---------TGTTGG.............................................................................................................................................................................................................................................................................................................................	18	1	5.00	0.00	5.00	0.00	0.00
..........................................GTG--------------------------------GGTGGGTxGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	17	3	1.67	0.00	0.00	1.67	0.00
..........................................GAG--------------------------------GGTGGGTxGG---------TGTGTGTG...........................................................................................................................................................................................................................................................................................................................	20	2	2.50	1.50	1.00	0.00	0.00
................................................................................................................................................................................................TGTGT-GTGTGTGTGTGTGTG-----------------.............................................................................................................................................................................................	20	15	0.33	0.00	0.33	0.00	0.00
..........................................GTG--------------------------------GGTGAGTGGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	5.00	0.00	5.00	0.00	0.00
.............................GT----G---GATGTG--------------------------------GATGGGTGGG---------T..................................................................................................................................................................................................................................................................................................................................	20	1	5.00	0.00	4.00	1.00	0.00
..............................T----G---TGTGTG--------------------------------GGTGGGTGGG---------C..................................................................................................................................................................................................................................................................................................................................	19	1	5.00	0.00	5.00	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGT---------GGTGTG.............................................................................................................................................................................................................................................................................................................................	19	1	5.00	0.00	5.00	0.00	0.00
...........................................TG--------------------------------GGTCGGTGGG---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	18	1	5.00	0.00	5.00	0.00	0.00
.........................................TGTG--------------------------------GGTGGGTGGG---------TGTCC..............................................................................................................................................................................................................................................................................................................................	19	1	4.00	0.00	4.00	0.00	0.00
..............................................................................GTGGGTGGG---------TGTGTGGGT..........................................................................................................................................................................................................................................................................................................................	18	2	2.00	0.00	2.00	0.00	0.00
..............................................................................GTGGGTGGG---------TGTGTGTCC..........................................................................................................................................................................................................................................................................................................................	18	1	4.00	0.00	4.00	0.00	0.00
...........................................GG--------------------------------GGTGGGTGGG---------TGTGTGG............................................................................................................................................................................................................................................................................................................................	19	1	4.00	0.00	4.00	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGTG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	2	2.00	0.00	2.00	0.00	0.00
...................................G---TTGGTG--------------------------------GGTGGGTGGG---------T..................................................................................................................................................................................................................................................................................................................................	18	2	2.00	0.00	2.00	0.00	0.00
..........................................GTG--------------------------------GGTGGCTGGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	4.00	0.00	3.00	1.00	0.00
..........................................GTG--------------------------------GGTGGTTGGG---------TGAGT..............................................................................................................................................................................................................................................................................................................................	18	1	4.00	1.00	3.00	0.00	0.00
..........................................GTT--------------------------------GGTGGGTGGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	2	2.00	0.00	2.00	0.00	0.00
..........................................GTG--------------------------------GGTGTGTGGG---------TGTGGGT............................................................................................................................................................................................................................................................................................................................	20	2	1.50	0.00	1.50	0.00	0.00
............................TGT----G---TGTGTG--------------------------------TGTGGGTG..............................................................................................................................................................................................................................................................................................................................................	18	32	0.09	0.00	0.09	0.00	0.00
..........................................ATG--------------------------------GGTGGGTGGG---------TGTGA..............................................................................................................................................................................................................................................................................................................................	18	1	3.00	0.00	3.00	0.00	0.00
..........................................GTG--------------------------------GGTCGGTGGG---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	19	1	3.00	0.00	3.00	0.00	0.00
..................................................................................................................................................................................................GGT-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	19	21	0.14	0.05	0.10	0.00	0.00
...................................G---TGTGTG--------------------------------GGTGGTTGGG---------T..................................................................................................................................................................................................................................................................................................................................	18	2	1.50	0.00	1.50	0.00	0.00
................................................................................................................................................................................................GGTGT-GTGTGTGTGTGTGT...............................................................................................................................................................................................................	19	21	0.14	0.05	0.10	0.00	0.00
..........................................GTG--------------------------------GGTGTGTGGG---------TGTGT..............................................................................................................................................................................................................................................................................................................................	18	7	0.43	0.14	0.29	0.00	0.00
..........................................GTG--------------------------------GCTGGGTGGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	18	1	3.00	0.00	3.00	0.00	0.00
..................................................................................................................................................................................................TGT-GTGTGTGTGTGGGTG-----------------.............................................................................................................................................................................................	18	32	0.09	0.00	0.09	0.00	0.00
................................................................................................................................................................................................TGTGT-GTGTGTGTGGGTG................................................................................................................................................................................................................	18	32	0.09	0.00	0.09	0.00	0.00
................................................................................................................................................................................................TGTGT-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	21	10	0.30	0.00	0.20	0.10	0.00
...........................................TT--------------------------------GGTGGGTGGG---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	18	2	1.50	0.00	1.50	0.00	0.00
...........................................TG--------------------------------GGTGGATGGG---------TGGGTGT............................................................................................................................................................................................................................................................................................................................	19	1	3.00	0.00	3.00	0.00	0.00
...........................................TG--------------------------------GGTGGATGGG---------TGGGT..............................................................................................................................................................................................................................................................................................................................	17	1	3.00	0.00	0.00	3.00	0.00
.......................................TTGGTG--------------------------------GGTGGGTGGG---------TG.................................................................................................................................................................................................................................................................................................................................	18	2	1.50	0.00	1.50	0.00	0.00
.........................................TGTG--------------------------------GGTGGGTGGG---------TGGC...............................................................................................................................................................................................................................................................................................................................	18	1	3.00	0.00	3.00	0.00	0.00
..........................................GTG--------------------------------GGTGGGTGGG---------TGTATGG............................................................................................................................................................................................................................................................................................................................	20	1	3.00	1.00	2.00	0.00	0.00
...........................................TG--------------------------------GTTGGGTGGG---------TGGGTG.............................................................................................................................................................................................................................................................................................................................	18	1	3.00	0.00	3.00	0.00	0.00
.................................................................................................................................................................................................GTGT-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	20	10	0.30	0.00	0.30	0.00	0.00

droBip1

TTGATAT-------------------G-TGT----G---TGGGTG--------------------------------TAGCTGGG-----------AATGTGTGCACT---------------------TTCTGCCATCCAGACTTCCAGCCAGCTAGCCAGCCAGCCTGCCTGCCATCTAGCCTTCCTGCCTGTGT-----GTGTGTGTGTG-----------------TATG--GAGATGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATA--TGCAAG------------------------------------------CCTGAACAACTTTGGAAC-------ACTGCAATCGC-TTTCTGGA

Size

Hit Count

Total Norm

dp4

TTGATGC-------------------C-tgt----g---tgtgtg--------------------------------tgtgt-------------gtgtgtgtCCAGTCGGTGTCATGAGGCGTATGCC-----------------------------------------------------------------------GTGTGTGTGTGTG-----------------TGTGA---GACGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATG--TGCAGCTG---------------------------A--------AGAGCCTG-----------TCC-------ATTGCACAATC-C-CCACCC	Size	Hit Count	Total Norm	V112 Male body	V043 Embryo	V051 Head	M022 Male body
............................TGT----G---TGTGTG--------------------------------TGTGT-------------GTGTGTGTG...........................................................................................................................................................................................................................................................................................................................	24	17	1.47	0.24	0.00	1.24	0.00
..........................G-TGT----G---TGTGTG--------------------------------TGTGT-------------GTGTGTG.............................................................................................................................................................................................................................................................................................................................	23	20	0.30	0.00	0.00	0.30	0.00
.............................GT----G---TGTGTG--------------------------------TGTGT-------------GTGTGTGTG...........................................................................................................................................................................................................................................................................................................................	23	20	0.30	0.00	0.00	0.30	0.00
........................................GTACG--------------------------------TGTGT-------------GTGTGTGT............................................................................................................................................................................................................................................................................................................................	18	29	0.17	0.00	0.17	0.00	0.00
...................................G---TACGTG--------------------------------TGTGT-------------GTGTGT..............................................................................................................................................................................................................................................................................................................................	18	29	0.17	0.00	0.17	0.00	0.00
...................................G---TACGTG--------------------------------TGTGT-------------GTGTGTG.............................................................................................................................................................................................................................................................................................................................	19	26	0.19	0.08	0.08	0.04	0.00
.............................GT----A---CGTGTG--------------------------------TGTGT-------------GTGT................................................................................................................................................................................................................................................................................................................................	18	29	0.17	0.00	0.17	0.00	0.00
.............................GT----A---CGTGTG--------------------------------TGTGT-------------GTGTG...............................................................................................................................................................................................................................................................................................................................	19	26	0.19	0.08	0.08	0.04	0.00
............................TGT----G---TGTGTG--------------------------------TGTGT-------------GTGTGTGTT...........................................................................................................................................................................................................................................................................................................................	24	13	0.31	0.00	0.08	0.23	0.00
..............................T----G---TGTGTG--------------------------------TGTGT-------------GTGTGTGTG...........................................................................................................................................................................................................................................................................................................................	22	21	0.19	0.00	0.00	0.19	0.00
............................TGT----G---TGTGTG--------------------------------TGTGT-------------GTGTGTG.............................................................................................................................................................................................................................................................................................................................	22	21	0.19	0.00	0.00	0.19	0.00
.........................................................................................................................................................................................................TTTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	18	37	0.08	0.03	0.03	0.03	0.00
............................TGT----G---TGTGTG--------------------------------TGTGT-------------GTGT................................................................................................................................................................................................................................................................................................................................	19	27	0.11	0.04	0.00	0.07	0.00
..............................T----G---TGTGTG--------------------------------TGTGT-------------GTGTGT..............................................................................................................................................................................................................................................................................................................................	19	27	0.11	0.04	0.00	0.07	0.00
.........................................TTTG--------------------------------TGTGT-------------GTGTGTGTG...........................................................................................................................................................................................................................................................................................................................	18	37	0.08	0.03	0.03	0.03	0.00
..............................T----G---TCTGTG--------------------------------TGTGT-------------ATGTGTG.............................................................................................................................................................................................................................................................................................................................	20	20	0.15	0.15	0.00	0.00	0.00
.......................................TTTGTG--------------------------------TGTGT-------------GTGTGTG.............................................................................................................................................................................................................................................................................................................................	18	37	0.08	0.03	0.03	0.03	0.00
............................TGT----C---TGTGTG--------------------------------TGTAT-------------GTGTG...............................................................................................................................................................................................................................................................................................................................	20	20	0.15	0.15	0.00	0.00	0.00
............................TTT----G---TGTGTG--------------------------------TGTGT-------------GTG.................................................................................................................................................................................................................................................................................................................................	18	37	0.08	0.03	0.03	0.03	0.00
.......................................TGTGTG--------------------------------TGTGT-------------GTGTGTGT............................................................................................................................................................................................................................................................................................................................	19	27	0.11	0.04	0.00	0.07	0.00
..............................T----T---TGTGTG--------------------------------TGTGT-------------GTGTG...............................................................................................................................................................................................................................................................................................................................	18	37	0.08	0.03	0.03	0.03	0.00
....TGT-------------------C-TGT----G---TGTGTA--------------------------------TGTGT-------------G...................................................................................................................................................................................................................................................................................................................................	20	20	0.15	0.15	0.00	0.00	0.00
................................................................................................................................T-----------------------------------------------------------------------TTGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	18	37	0.08	0.03	0.03	0.03	0.00
......T-------------------T-TGT----G---TGTGTG--------------------------------TGTGT-------------G...................................................................................................................................................................................................................................................................................................................................	18	37	0.08	0.03	0.03	0.03	0.00

droPer1

TTGATGC-------------------C-TGT----G---TGTGTG--------------------------------TGTGT---------------GTGCGTCCAGTCGGTGTCATGAGGCGTATGCC------------------------------------------------------------------gt-gtgtgtgtgtgtgtg-----------------tgtgA---GACGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATG--TGCAGCTG---------------------------A--------AGAGCCTG-----------TCC-------ATTGCACAATC-C-CCTCCC	Size	Hit Count	Total Norm	V111 Male body	V042 Embryo	V050 Head	V057 Head	M021 Embryo
...................................................................................................................................................................................................GT-GTGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	20	32	0.47	0.47	0.00	0.00	0.00	0.00
......................................................................................................................................................................................................GTGTGTGTGTGTGTG-----------------TGTGT---.....................................................................................................................................................................................	20	32	0.47	0.47	0.00	0.00	0.00	0.00
.............................GT----G---TGTGTG--------------------------------TGTGT---------------GTGTGT............................................................................................................................................................................................................................................................................................................................	20	32	0.47	0.47	0.00	0.00	0.00	0.00
..........................G-TGC----G---TGTGTG--------------------------------TGTGT---------------GTGC..............................................................................................................................................................................................................................................................................................................................	20	26	0.46	0.12	0.35	0.00	0.00	0.00
......................................................................................................................................................................................................GTGCGTGTGTGTGTG-----------------TGTGC---.....................................................................................................................................................................................	20	26	0.46	0.12	0.35	0.00	0.00	0.00
...................................................................................................................................................................................................GT-GCGTGTGTGTGTGTG-----------------TGC..........................................................................................................................................................................................	20	26	0.46	0.12	0.35	0.00	0.00	0.00
......................................................................................................................................................................................................GTGTGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	21	29	0.31	0.31	0.00	0.00	0.00	0.00
..........................G-TGT----G---TGTGTG--------------------------------TGTGT---------------GT................................................................................................................................................................................................................................................................................................................................	18	41	0.22	0.17	0.05	0.00	0.00	0.00
.............................GT----G---TGTGTG--------------------------------TGTGT---------------GTGT..............................................................................................................................................................................................................................................................................................................................	18	41	0.22	0.17	0.05	0.00	0.00	0.00
...................................................................................................................................................................................................GT-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	18	41	0.22	0.17	0.05	0.00	0.00	0.00
........................................................................................................................................................................................................GTGTGTGTGTGTG-----------------TGTGT---.....................................................................................................................................................................................	18	41	0.22	0.17	0.05	0.00	0.00	0.00
......................................................................................................................................................................................................GTGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	18	41	0.22	0.17	0.05	0.00	0.00	0.00
...................................................................................................................................................................................................GT-GTGTGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	21	29	0.31	0.31	0.00	0.00	0.00	0.00
...................................G---TGTGTG--------------------------------TGTGT---------------GTGTGT............................................................................................................................................................................................................................................................................................................................	18	41	0.22	0.17	0.05	0.00	0.00	0.00
..........................G-TGC----G---TGTGTG--------------------------------TGTGT---------------GTG...............................................................................................................................................................................................................................................................................................................................	19	42	0.19	0.10	0.10	0.00	0.00	0.00
.............................GT----G---CGTGTG--------------------------------TGTGT---------------GTGTG.............................................................................................................................................................................................................................................................................................................................	19	42	0.19	0.10	0.10	0.00	0.00	0.00
......................................................................................................................................................................................................GTGCGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	18	26	0.31	0.04	0.27	0.00	0.00	0.00
...GTGC-------------------G-TGT----G---TGTGTG--------------------------------TGTG..................................................................................................................................................................................................................................................................................................................................................	19	42	0.19	0.10	0.10	0.00	0.00	0.00
......................................................................................................................................................................................................GTGCGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	19	42	0.19	0.10	0.10	0.00	0.00	0.00
........................................................................................................................................................................................................GTGCGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	19	42	0.19	0.10	0.10	0.00	0.00	0.00
...................................................................................................................................................................................................GT-GCGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	18	26	0.31	0.04	0.27	0.00	0.00	0.00
...................................................................................................................................................................................................GT-GCGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	19	42	0.19	0.10	0.10	0.00	0.00	0.00
.......................................................................................................................................................................................................TGTGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	20	32	0.22	0.19	0.00	0.03	0.00	0.00
............................TGT----G---TGTGTG--------------------------------TGTGT---------------GTGTG.............................................................................................................................................................................................................................................................................................................................	20	32	0.22	0.19	0.00	0.03	0.00	0.00
................................................................................................................................T------------------------------------------------------------------GT-GTGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	21	29	0.24	0.17	0.07	0.00	0.00	0.00
....................................................................................................................................................................................................T-GTTTGTTTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	20	23	0.30	0.17	0.04	0.00	0.09	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	18	39	0.18	0.08	0.00	0.08	0.03	0.00
.........................................................................................................................................................................................................TGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	18	39	0.18	0.08	0.00	0.08	0.03	0.00
............................TGT----G---TGTGTG--------------------------------TGTGT---------------GTG...............................................................................................................................................................................................................................................................................................................................	18	39	0.18	0.08	0.00	0.08	0.03	0.00
............................TGT----G---TGTGTG--------------------------------TGTGT---------------GTGTGT............................................................................................................................................................................................................................................................................................................................	21	29	0.24	0.17	0.07	0.00	0.00	0.00
................................................................................................................................T------------------------------------------------------------------GT-GTGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	20	32	0.22	0.19	0.00	0.03	0.00	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	20	32	0.22	0.19	0.00	0.03	0.00	0.00
.......................................................................................................................................................................................................TGTGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	18	39	0.18	0.08	0.00	0.08	0.03	0.00
................................................................................................................................T------------------------------------------------------------------GT-GTGTGTGTGTGTGTG-----------------.............................................................................................................................................................................................	18	39	0.18	0.08	0.00	0.08	0.03	0.00
..............................T----G---TGTGTG--------------------------------TGTGT---------------GTGTG.............................................................................................................................................................................................................................................................................................................................	18	39	0.18	0.08	0.00	0.08	0.03	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TGTGT---.....................................................................................................................................................................................	21	29	0.24	0.17	0.07	0.00	0.00	0.00
............................TGT----G---TGTGTG--------------------------------TGTGT---------------GTGT..............................................................................................................................................................................................................................................................................................................................	19	36	0.14	0.14	0.00	0.00	0.00	0.00
......................................................................................................................................................................................................GTGCGTGTGTGTGTG-----------------TGTGC---G....................................................................................................................................................................................	21	23	0.22	0.17	0.04	0.00	0.00	0.00
..............................T----G---TGTGTG--------------------------------TGTGT---------------GTGTGT............................................................................................................................................................................................................................................................................................................................	19	36	0.14	0.14	0.00	0.00	0.00	0.00
................................................................................................................................T------------------------------------------------------------------GT-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	19	36	0.14	0.14	0.00	0.00	0.00	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	19	36	0.14	0.14	0.00	0.00	0.00	0.00
...................................................................................................................................................................................................GT-GCGTGTGTGTGTGTG-----------------TGCG.........................................................................................................................................................................................	21	23	0.22	0.17	0.04	0.00	0.00	0.00
..........................G-TGC----G---TGTGTG--------------------------------TGTGT---------------GTGCG.............................................................................................................................................................................................................................................................................................................................	21	23	0.22	0.17	0.04	0.00	0.00	0.00
.......................................................................................................................................................................................................TGTGTGTGTGTGTG-----------------TGTGT---.....................................................................................................................................................................................	19	36	0.14	0.14	0.00	0.00	0.00	0.00
................................................................................................................................T------------------------------------------------------------------GT-GTGTGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	22	26	0.15	0.15	0.00	0.00	0.00	0.00
....GGC-------------------C-TGT----G---CGTGTG--------------------------------TGTG..................................................................................................................................................................................................................................................................................................................................................	18	1	4.00	4.00	0.00	0.00	0.00	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	22	26	0.15	0.15	0.00	0.00	0.00	0.00
...................................................................................................................................................................................................GT-ATCTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	18	28	0.11	0.11	0.00	0.00	0.00	0.00
...................................................................................................................................................................................................GT-GTGTGTGTGTGTATG-----------------TGT..........................................................................................................................................................................................	20	32	0.09	0.09	0.00	0.00	0.00	0.00
................................................................................................................................C------------------------------------------------------------------GT-GCGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	20	29	0.10	0.10	0.00	0.00	0.00	0.00
................................................................................................................................G------------------------------------------------------------------GT-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	19	24	0.13	0.13	0.00	0.00	0.00	0.00
..........................G-TGT----G---TGTGTG--------------------------------TGTGT---------------GTGAGT............................................................................................................................................................................................................................................................................................................................	22	30	0.10	0.10	0.00	0.00	0.00	0.00
...................................................................................................................................................................................................GT-ATGTGTATGTGTGTG-----------------T............................................................................................................................................................................................	18	27	0.11	0.04	0.00	0.00	0.00	0.07
...................................................................................................................................................................................................GT-GTTTGTGTGTGTGTT-----------------TGTG.........................................................................................................................................................................................	21	20	0.15	0.15	0.00	0.00	0.00	0.00
......................................................................................................................................................................................................GTATCTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	18	28	0.11	0.11	0.00	0.00	0.00	0.00
................................................................................................................................C------------------------------------------------------------------GT-GCGTGTGTGTGTGTG-----------------TGC..........................................................................................................................................................................................	21	4	0.75	0.75	0.00	0.00	0.00	0.00
...................................................................................................................................................................................................GT-TTGTTTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	20	22	0.14	0.14	0.00	0.00	0.00	0.00
......C-------------------G-TGC----G---TGTGTG--------------------------------TGTGT---------------GTGC..............................................................................................................................................................................................................................................................................................................................	21	4	0.75	0.75	0.00	0.00	0.00	0.00
...................................................................................................................................................................................................GT-GTGTGTGCGTGTGTG-----------------AGTG.........................................................................................................................................................................................	21	20	0.15	0.15	0.00	0.00	0.00	0.00
........................................................................................................................................................................................................GTGTGTGTGTGCG-----------------xGTGA---G....................................................................................................................................................................................	18	2	1.50	1.50	0.00	0.00	0.00	0.00
......C-------------------G-TGC----G---TGTGTG--------------------------------TGTGT---------------GTG...............................................................................................................................................................................................................................................................................................................................	20	29	0.10	0.10	0.00	0.00	0.00	0.00
......................................................................................................................................................................................................GTGTGTGTGTGTGTA-----------------TGTGT---.....................................................................................................................................................................................	20	32	0.09	0.09	0.00	0.00	0.00	0.00
................................................................................................................................C------------------------------------------------------------------GA-GTGTGTGTGTGTATG-----------------T............................................................................................................................................................................................	19	4	0.75	0.75	0.00	0.00	0.00	0.00
....................................................................................................................................................................................................G-GTGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	19	24	0.13	0.13	0.00	0.00	0.00	0.00
......................................................................................................................................................................................................GTGTGTGTGTTTGTG-----------------TGTA.........................................................................................................................................................................................	19	27	0.11	0.11	0.00	0.00	0.00	0.00
...................................................................................................................................................................................................GT-GTGTGTGTTTGTGTG-----------------TA...........................................................................................................................................................................................	19	27	0.11	0.11	0.00	0.00	0.00	0.00
....................................................................................................................................................................................................C-GTGCGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	20	29	0.10	0.10	0.00	0.00	0.00	0.00
...................................................................................................................................................................................................GT-GTGTGTGTGTGTGTG-----------------TGAGT---.....................................................................................................................................................................................	22	30	0.10	0.10	0.00	0.00	0.00	0.00
......................................................................................................................................................................................................GTGTGTGTGTGTGTG-----------------TGTGA---GT...................................................................................................................................................................................	22	30	0.10	0.10	0.00	0.00	0.00	0.00
......................................................................................................................................................................................................GTATGTGTATGTGTG-----------------TGT..........................................................................................................................................................................................	18	27	0.11	0.04	0.00	0.00	0.00	0.07
.............................GT----G---TGTGTG--------------------------------TGTGT---------------ATGTGT............................................................................................................................................................................................................................................................................................................................	20	32	0.09	0.09	0.00	0.00	0.00	0.00
.............................GT----G---TGTGTG--------------------------------TGTGT---------------GCGCT.............................................................................................................................................................................................................................................................................................................................	19	4	0.75	0.50	0.00	0.25	0.00	0.00
...................................G---TGTGTG--------------------------------TGTGT---------------GTGCGCT...........................................................................................................................................................................................................................................................................................................................	19	4	0.75	0.50	0.00	0.25	0.00	0.00

droWil1

TTGATGCCCCAACACACACCCACCTCC-TAT----C---TATCTATCTATCTCTGTCTCACCATAACTGA-----------------g------------------------------------------------------------------------------------------------------------t-gtgtgtgtgtgtgtg-----------------tgtat---gtTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATG--TGCAACCGAAGCAGCAGAAGCCAGGCC--CAAGTAGAAGCAA--AAGGCCTG-----------AAC-------ATTGCACTTGGGCCATACGC	Size	Hit Count	Total Norm	V117 Male body	V118 Embryo	V119 Head	M020 Head
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGCGTCTGTGTGTG-----------------TGT..........................................................................................................................................................................................	20	11	2.73	0.00	2.64	0.00	0.09
....................................................................................................................................................................................................T-GTGTGCGTCTGTGTG-----------------TGT..........................................................................................................................................................................................	19	12	1.67	0.00	1.50	0.17	0.00
....................................................................................................................................................................................................T-GTGTGCGTCTGTGTG-----------------TG...........................................................................................................................................................................................	18	16	1.19	0.00	0.94	0.25	0.00
....................................................................................................................................................................................................T-GTATGTGTGTGTATG-----------------TGTAT---.....................................................................................................................................................................................	21	1	16.00	3.00	8.00	5.00	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	18	38	0.39	0.00	0.16	0.24	0.00
.......................................................................................................................................................................................................TGTGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	18	38	0.39	0.00	0.16	0.24	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTG................................................................................................................................................................................................................	18	38	0.39	0.00	0.16	0.24	0.00
.........................................................................................................................................................................................................TGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	18	38	0.39	0.00	0.16	0.24	0.00
.....................................................................T-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------.............................................................................................................................................................................................	18	38	0.39	0.00	0.16	0.24	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	23	16	0.94	0.00	0.19	0.75	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	22	20	0.65	0.00	0.10	0.55	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	22	20	0.65	0.00	0.10	0.55	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGCGTCTGTGTGTG-----------------TG...........................................................................................................................................................................................	19	12	1.00	0.00	1.00	0.00	0.00
.......................................................................................................................................................................................................TGTGTGTGTGTGTG-----------------TGTGT---GT...................................................................................................................................................................................	21	26	0.42	0.00	0.23	0.19	0.00
.....................................................................T-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	20	30	0.37	0.00	0.07	0.30	0.00
.......................................................................................................................................................................................................TGTGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	20	30	0.37	0.00	0.07	0.30	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	20	30	0.37	0.00	0.07	0.30	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	21	26	0.42	0.00	0.23	0.19	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------.............................................................................................................................................................................................	20	30	0.37	0.00	0.07	0.30	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TGTGT---.....................................................................................................................................................................................	21	26	0.42	0.00	0.23	0.19	0.00
.....................................................................T-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	21	26	0.42	0.00	0.23	0.19	0.00
......................................................................................................................................................................................................GTGTTTGTGTGTGCG-----------------TGT..........................................................................................................................................................................................	18	21	0.48	0.10	0.33	0.05	0.00
....................................................................................................................................................................................................T-GTGTATGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	22	24	0.42	0.00	0.00	0.42	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-ATGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	22	24	0.42	0.00	0.00	0.42	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTTTGTGTGTGCGTG-----------------T............................................................................................................................................................................................	18	21	0.48	0.10	0.33	0.05	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGCGTGTGTGTGTG-----------------T............................................................................................................................................................................................	18	43	0.21	0.00	0.19	0.02	0.00
..........................................................................................................................................................................................................GTGTGCGTGTG-----------------TGTGT---GT...................................................................................................................................................................................	18	43	0.21	0.00	0.19	0.02	0.00
....................................................................GT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGT...............................................................................................................................................................................................................	18	41	0.22	0.07	0.07	0.07	0.00
....................................................................GT-----------------G------------------------------------------------------------------------------------------------------------T-GCGTGTGTGTGTGT...............................................................................................................................................................................................................	18	43	0.21	0.00	0.19	0.02	0.00
..........................................................................................................................................................................................................GTGTGTGTGTG-----------------TGTGT---GT...................................................................................................................................................................................	18	41	0.22	0.07	0.07	0.07	0.00
........................................................................................................................................................................................................GTGTGTGTGTGTG-----------------TGTGT---.....................................................................................................................................................................................	18	41	0.22	0.07	0.07	0.07	0.00
........................................................................................................................................................................................................ATGTGTGTGTGTG-----------------TGTAT---GTG..................................................................................................................................................................................	21	13	0.69	0.00	0.62	0.08	0.00
....................................................................................................................................................................................................T-ATGTGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	20	38	0.24	0.00	0.00	0.24	0.00
......................................................................................................................................................................................................GTGTGCGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	18	43	0.21	0.00	0.19	0.02	0.00
.....................................................................T-----------------A------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	20	38	0.24	0.00	0.00	0.24	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	18	41	0.22	0.07	0.07	0.07	0.00
.......................................................................................................................................................................................................TATGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	20	38	0.24	0.00	0.00	0.24	0.00
...................................................................TAT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------.............................................................................................................................................................................................	20	38	0.24	0.00	0.00	0.24	0.00
........................................................................................................................................................................................................GTGTGCGTGTGTG-----------------TGTGT---.....................................................................................................................................................................................	18	43	0.21	0.00	0.19	0.02	0.00
......................................................................................................................................................................................................GTGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	18	41	0.22	0.07	0.07	0.07	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGCGTCTGTGTGTG-----------------T............................................................................................................................................................................................	18	15	0.53	0.00	0.53	0.00	0.00
....................................................................................................................................................................................................T-GTGTATGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	20	33	0.24	0.00	0.03	0.21	0.00
....................................................................................................................................................................................................T-GTCTGTGTGTGTGTG-----------------TGC..........................................................................................................................................................................................	19	18	0.44	0.00	0.39	0.06	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-ATGTGTGTGTGTGTG-----------------.............................................................................................................................................................................................	20	33	0.24	0.00	0.03	0.21	0.00
.......................................................................................................................................................................................................TGTGTATGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	20	33	0.24	0.00	0.03	0.21	0.00
......................................................................................................................................................................................................GTGTGCGTCTGTGTG-----------------TGT..........................................................................................................................................................................................	18	15	0.53	0.00	0.53	0.00	0.00
.....................................................................T-----------------G------------------------------------------------------------------------------------------------------------T-GTATGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	20	33	0.24	0.00	0.03	0.21	0.00
......................................................................................................................................................................................................GTGTGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	21	25	0.28	0.00	0.04	0.24	0.00
....................................................................GT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	21	25	0.28	0.00	0.04	0.24	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TGTGT---GC...................................................................................................................................................................................	24	16	0.44	0.00	0.06	0.38	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	21	25	0.28	0.00	0.04	0.24	0.00
.......................................................................................................................................................................................................TGTGTATGTGTGTG-----------------TGTGT---GT...................................................................................................................................................................................	21	29	0.21	0.00	0.07	0.14	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GCGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	18	15	0.40	0.07	0.33	0.00	0.00
.....................................................................T-----------------G------------------------------------------------------------------------------------------------------------T-GTATGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	21	29	0.21	0.00	0.07	0.14	0.00
......................................................................................................................................................................................................GTGCGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	18	15	0.40	0.07	0.33	0.00	0.00
....................................................................................................................................................................................................T-GTGTATGTGTGTGTG-----------------TGTGT---.....................................................................................................................................................................................	21	29	0.21	0.00	0.07	0.14	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-ATGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	21	29	0.21	0.00	0.07	0.14	0.00
.......................................................................................................................................................................................................TATGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	18	49	0.10	0.00	0.02	0.08	0.00
.......................................................................................A------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	18	18	0.28	0.17	0.11	0.00	0.00
.......................................................................................A------------------------------------------------------------------------------------------------------------T-ATGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	19	22	0.23	0.14	0.00	0.09	0.00
....................................................................................................................................................................................................T-GCGTCTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	19	17	0.29	0.00	0.29	0.00	0.00
......................................................................................................................................................................................................ATGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	18	18	0.28	0.17	0.11	0.00	0.00
.....................................................................T-----------------A------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------.............................................................................................................................................................................................	18	49	0.10	0.00	0.02	0.08	0.00
.......................................................................................................................................................................................................TGTGTGTGTGTGTG-----------------TGTGT---.....................................................................................................................................................................................	19	35	0.14	0.03	0.06	0.06	0.00
...................................................................TAT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTG................................................................................................................................................................................................................	18	49	0.10	0.00	0.02	0.08	0.00
.....................................................................T-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	19	35	0.14	0.03	0.06	0.06	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGT...............................................................................................................................................................................................................	19	35	0.14	0.03	0.06	0.06	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	19	35	0.14	0.03	0.06	0.06	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-TTGTGTGTATGTGTG-----------------TGT..........................................................................................................................................................................................	20	12	0.42	0.25	0.17	0.00	0.00
.........................................................................................................................................................................................................TGTGTGTGTGTG-----------------TGTGT---GT...................................................................................................................................................................................	19	35	0.14	0.03	0.06	0.06	0.00
.......................................................................................A------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	19	15	0.33	0.00	0.13	0.20	0.00
...................................................................TAT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	22	26	0.19	0.00	0.04	0.15	0.00
....................................................................................................................................................................................................T-ATGTGTGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	22	26	0.19	0.00	0.04	0.15	0.00
...................................................................TGC-----------------G------------------------------------------------------------------------------------------------------------T-CTGTGTGTGTGTGT...............................................................................................................................................................................................................	19	17	0.29	0.00	0.29	0.00	0.00
....................................................................................................................................................................................................T-ATGTGTGTGTGTGTG-----------------TG...........................................................................................................................................................................................	18	49	0.10	0.00	0.02	0.08	0.00
.........................................................................................................................................................................................................TATGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	18	49	0.10	0.00	0.02	0.08	0.00
.......................................................................................................................................................................................................TGTATGTGTGTGTG-----------------TGTGT---G....................................................................................................................................................................................	20	35	0.11	0.00	0.09	0.03	0.00
.......................................................................................................................................................................................................TGTATGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	18	44	0.09	0.00	0.00	0.09	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	20	30	0.13	0.10	0.03	0.00	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-ATGTGTGTGTGTG................................................................................................................................................................................................................	18	41	0.10	0.00	0.00	0.10	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TGTGT---GT...................................................................................................................................................................................	24	12	0.33	0.08	0.00	0.25	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TGTGA---G....................................................................................................................................................................................	22	23	0.17	0.00	0.04	0.13	0.00
....................................................................................................................................................................................................T-GTGTATGTGTGTGTG-----------------TG...........................................................................................................................................................................................	18	41	0.10	0.00	0.00	0.10	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------AG...........................................................................................................................................................................................	22	23	0.17	0.00	0.04	0.13	0.00
.....................................................................A-----------------C------------------------------------------------------------------------------------------------------------T-GTGTGGGTGTGTGTG-----------------.............................................................................................................................................................................................	18	2	2.00	0.00	1.00	1.00	0.00
........................................................................................................................................................................................................GTGTGTGTGTGTG-----------------TGTGT---GT...................................................................................................................................................................................	20	30	0.13	0.10	0.03	0.00	0.00
...................................................................TGT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------C............................................................................................................................................................................................	21	31	0.13	0.00	0.03	0.10	0.00
.......................................................................................G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TGTGT---.....................................................................................................................................................................................	22	21	0.19	0.05	0.05	0.10	0.00
.................................................................ACTGT-----------------G------------------------------------------------------------------------------------------------------------T-GGGTGTGTGTG..................................................................................................................................................................................................................	18	2	2.00	0.00	1.00	1.00	0.00
....................................................................................................................................................................................................T-GTGTGTGTGTGTGTG-----------------TGTGC---.....................................................................................................................................................................................	21	31	0.13	0.00	0.03	0.10	0.00
....................................................................................................................................................................................................T-GTATGTGTGTGTGTG-----------------TGTG.........................................................................................................................................................................................	20	35	0.11	0.00	0.09	0.03	0.00
...................................................................TGT-----------------A------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTG................................................................................................................................................................................................................	18	44	0.09	0.00	0.00	0.09	0.00
.....................................................................T-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TGC..........................................................................................................................................................................................	21	31	0.13	0.00	0.03	0.10	0.00
......................................................................................................................................................................................................GTGTGTGTGTGTGTG-----------------TGTGT---GT...................................................................................................................................................................................	22	21	0.19	0.05	0.05	0.10	0.00
............................................................................................................................................................................................................GTGTGTGTG-----------------TGTAT---ATGG.................................................................................................................................................................................	18	3	1.33	0.00	1.33	0.00	0.00
....................................................................GT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------TGT..........................................................................................................................................................................................	22	21	0.19	0.05	0.05	0.10	0.00
....................................................................GT-----------------G------------------------------------------------------------------------------------------------------------T-GTGTGTGTGTGTGTG-----------------T............................................................................................................................................................................................	20	30	0.13	0.10	0.03	0.00	0.00
.......................................................................................................................................................................................................TGTGTATGTGTGTG-----------------TGTG.........................................................................................................................................................................................	18	41	0.10	0.00	0.00	0.10	0.00
.........................................................................................................................................................................................................TGTGTATGTGTG-----------------TGTGT---G....................................................................................................................................................................................	18	41	0.10	0.00	0.00	0.10	0.00
.......................................................................................................................................................................................................TGTGTGTGTGTGTG-----------------TGTGT---GC...................................................................................................................................................................................	21	31	0.13	0.00	0.03	0.10	0.00

droVir3

TTGATGT-------------------CGTCTTTGTGTGCCATGTG--------------------------------TGTGT-------------GTGTGTGTCCA------------------------------------------------------------------------------------------------------TTTTG-----------------TGTGT---GTTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATACATGCCAGA----------------------GCAGTGCATGCAACT----GC-C-----------CAC-------AATGCACATTT-CTATCCGC	Size	Hit Count	Total Norm	V116 Male body	V053 Unknown	V047 Embryo	M027 Male body	M028 Head
.........................................TGTG--------------------------------TGTGT-------------GTGTGTGTG...........................................................................................................................................................................................................................................................................................................................	18	24	0.75	0.33	0.29	0.08	0.00	0.04
........................................GTGTG--------------------------------TGTGT-------------GTGTGTGT............................................................................................................................................................................................................................................................................................................................	18	23	0.43	0.26	0.09	0.09	0.00	0.00
.........................................TGTG--------------------------------TGTGT-------------GTGTGTGTGTA------------------------------------------------------------------------------------------------------...................................................................................................................................................................................................................	20	22	0.36	0.23	0.09	0.00	0.05	0.00
......................................ATATGTG--------------------------------TGTGT-------------GTGTGTGT............................................................................................................................................................................................................................................................................................................................	20	9	0.89	0.89	0.00	0.00	0.00	0.00
.........................................TGTG--------------------------------TGTGT-------------GTGAGTGTG...........................................................................................................................................................................................................................................................................................................................	18	30	0.13	0.03	0.07	0.03	0.00	0.00
.......................................TGTGTG--------------------------------TGTGT-------------GTGTGTGTC...........................................................................................................................................................................................................................................................................................................................	20	21	0.19	0.19	0.00	0.00	0.00	0.00
.........................................TGTG--------------------------------TGTGT-------------GTGTGTGTT...........................................................................................................................................................................................................................................................................................................................	18	29	0.10	0.03	0.07	0.00	0.00	0.00
........................................ATGTG--------------------------------TATGT-------------GTGTGTGTG...........................................................................................................................................................................................................................................................................................................................	19	9	0.33	0.33	0.00	0.00	0.00	0.00
.........................................TGTG--------------------------------TGTGT-------------GTGTGTGTGTA------------------------------------------------------------------------------------------------------TT.................................................................................................................................................................................................................	22	7	0.43	0.29	0.14	0.00	0.00	0.00
........................................GTGTG--------------------------------TGCGT-------------GTGTGTGT............................................................................................................................................................................................................................................................................................................................	18	26	0.12	0.00	0.00	0.12	0.00	0.00
........................................ATGTG--------------------------------TGTGT-------------GTGTGCGTG...........................................................................................................................................................................................................................................................................................................................	19	12	0.25	0.25	0.00	0.00	0.00	0.00

droMoj3

TTGATGT-------------------CGTCGTTGTGTACCATG--------CATTCG----------TGTGTGCCTGT-----------------GT--------------------------------------------------------------------------------------------------GTG-------TG----CG-----------------TGTGT---GTTAGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATACATGCCAG------------------GCCGGCCAGTGCATGCAACT----TC-T-----------CTCAATGCATATTCCAATCC--------AC	Size	Hit Count	Total Norm	V110 Male body	V056 Unknown	V049 Head	V041 Embryo
.............................................................................T-----------------AT--------------------------------------------------------------------------------------------------GTG-------TG----CG-----------------TGTGT---GTTTG................................................................................................................................................................................	20	2	21.50	13.00	7.00	1.50	0.00
.............................................................................T-----------------AT--------------------------------------------------------------------------------------------------GTG-------TG----CG-----------------TGTGT---GTTT.................................................................................................................................................................................	19	2	11.50	6.50	3.50	1.50	0.00
.....................................................................TATGTCTGT-----------------GT--------------------------------------------------------------------------------------------------GTG-------TG----CG-----------------TGT..........................................................................................................................................................................................	21	1	11.00	5.00	0.00	0.00	6.00
.....................................................................TGTGTGTGT-----------------GT--------------------------------------------------------------------------------------------------GTG-------TG----CG-----------------TGT..........................................................................................................................................................................................	21	1	7.00	6.00	1.00	0.00	0.00
.....................................................................TATGTCTGT-----------------GT--------------------------------------------------------------------------------------------------GTG-------TG----CG-----------------TG...........................................................................................................................................................................................	20	1	4.00	1.00	1.00	1.00	1.00
..........................................................................GTGT-----------------GT--------------------------------------------------------------------------------------------------GTG-------TG----TG-----------------TGTGT---GT...................................................................................................................................................................................	20	7	0.57	0.57	0.00	0.00	0.00
.....................................................................TGTGTGTGT-----------------GT--------------------------------------------------------------------------------------------------GTG-------TG----CG-----------------TGTG.........................................................................................................................................................................................	22	1	3.00	2.00	0.00	0.00	1.00

droGri2

TTGATGT-------------------TGTCGTTGAGT-CTAtg--------tctgtg----------tgt-----------------gtgtgtgtgt--------------------------------------------------------------------------------------------------gt-----------gtgtgtgcgagtgtCCAGTTCGTGTGT---GTTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTA-------------TATGCAGGTATACATGCAACT-----------------------------------------CCTT-----------CTC-------AATGGATCCCC-------AC	Size	Hit Count	Total Norm	V109 Male body
.....................................................TGTG----------TGT-----------------xTGTGTGTGT--------------------------------------------------------------------------------------------------GT-----------GTGTC..............................................................................................................................................................................................................	23	28	0.14	0.14
.......................................................TG----------TGT-----------------GTxTGTGTGT--------------------------------------------------------------------------------------------------GT-----------GTGTGTC............................................................................................................................................................................................................	23	28	0.14	0.14
.....................................................................T-----------------GTGTGTGTGT--------------------------------------------------------------------------------------------------GC-----------GTGCGTGC...........................................................................................................................................................................................................	21	1	4.00	4.00
.....................................................TGTG----------TGT-----------------GTGTGTGTGT--------------------------------------------------------------------------------------------------GC-----------GTG................................................................................................................................................................................................................	22	34	0.09	0.09
...................................................TGTGTG----------TGT-----------------GTGTGTGTGC--------------------------------------------------------------------------------------------------GT-----------G..................................................................................................................................................................................................................	22	34	0.09	0.09
.......................................................TG----------TGT-----------------GTGTGTTTGT--------------------------------------------------------------------------------------------------GT-----------GT.................................................................................................................................................................................................................	19	41	0.07	0.07
.......................................................TG----------TGT-----------------GTGTGTGTGT--------------------------------------------------------------------------------------------------GT-----------GCGTG..............................................................................................................................................................................................................	22	34	0.09	0.09
.....................................................TGTG----------TGT-----------------GTGTTTGTGT--------------------------------------------------------------------------------------------------GT-----------...................................................................................................................................................................................................................	19	41	0.07	0.07
.....................................................................T-----------------GTGTGTGTGT--------------------------------------------------------------------------------------------------GT-----------GTGTGTGC...........................................................................................................................................................................................................	21	18	0.17	0.17
.....................................................TGTG----------TGT-----------------GTGTGTGTGT--------------------------------------------------------------------------------------------------GT-----------GC.................................................................................................................................................................................................................	21	18	0.17	0.17
.........................................TG--------TGTGTG----------TGT-----------------GTGTGTGCGT--------------------------------------------------------------------------------------------------G...............................................................................................................................................................................................................................	22	34	0.09	0.09
...................................................TGTGTG----------TGT-----------------GTTTGTGTGT--------------------------------------------------------------------------------------------------................................................................................................................................................................................................................................	19	41	0.07	0.07
...................................................................TGT-----------------GTGTGTGTTT--------------------------------------------------------------------------------------------------GT-----------GTGT...............................................................................................................................................................................................................	19	41	0.07	0.07
........................................................................................TGTGTGTGT--------------------------------------------------------------------------------------------------GT-----------TTGTGTGT...........................................................................................................................................................................................................	19	41	0.07	0.07
..........................................................................................TGTGTGT--------------------------------------------------------------------------------------------------GT-----------GTGTGTGTGCGTG......................................................................................................................................................................................................	22	34	0.09	0.09
........................................................................................TGTGTGTGT--------------------------------------------------------------------------------------------------GT-----------GTGTGTGCGTG........................................................................................................................................................................................................	22	34	0.09	0.09
.....................................................................T-----------------GTGTGTGTGT--------------------------------------------------------------------------------------------------GT-----------GTGTGCGTG..........................................................................................................................................................................................................	22	34	0.09	0.09
...................................................................TGT-----------------GTGTGTGTGT--------------------------------------------------------------------------------------------------GT-----------GTGCGTG............................................................................................................................................................................................................	22	34	0.09	0.09
.........................................TG--------TGTGTG----------TGT-----------------TTGTGTGT....................................................................................................................................................................................................................................................................................................................................	19	41	0.07	0.07
.......................................................TG----------TGT-----------------GTGTGTGTGT--------------------------------------------------------------------------------------------------GT-----------GTGC...............................................................................................................................................................................................................	21	18	0.17	0.17
.....................................................................T-----------------GTGTGTGTGT--------------------------------------------------------------------------------------------------TT-----------GTGTGT.............................................................................................................................................................................................................	19	41	0.07	0.07
...................................................................TGT-----------------GTGTGTGTGT--------------------------------------------------------------------------------------------------GT-----------GTGTGC.............................................................................................................................................................................................................	21	18	0.17	0.17

Generated: 04/20/2012 at 05:15:14 EDT

dme-mir-280

chr2R:4185611-4185705 +

Known_mirbase

intergenic

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

Visually pleasing best hits from LASTZ and MAF

Legend

Re-alignment after removal of non-confident orthologs

20-way Secondary Structure

Small RNA-seq read pileup