dme-mir-990- 12- and 20-way alignments

dme-mir-990	chr2R:12782728-12782813 -	Known_mirbase
[View on miRBase]	[View on UCSC Genome Browser {Cornell Mirror}]	intron

Legend:

   mature strand at position 12782780-12782800
   star strand at position 12782742-12782765
   mutations
   read mismatches
   coordinate mismatch (possible incorrect ortholog)

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

Species	Coordinate	Alignment
dm3	chr2R:12782713-12782828 -	TGGGAAAC---------------TGGCGAATCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG----CTTTCAGCTTCGGTGCC-ATT-----------------------------------------------------TCACCCCGAGCACCA------------AGAGCATCAGACT
droSim1	chr2R:11518341-11518456 -	TGGGAAAC---------------TGGCGAATCTG------------CTCAGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG----CTTTCAGCTTCGGTGCC-ATT-----------------------------------------------------TCACCCCGAGCACCA------------AGAGCATCAGACT
droSec1	super_1:10286785-10286900 -	TGGGAAAC---------------TGGCGAATCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG----CTTTCAGCTTCGGTGCC-ATT-----------------------------------------------------TCACCCCGAGCACCA------------AGAGTATCAGACT
droYak2	chr2R:16191830-16191945 +	TGGGAAAC---------------TGGCGAATCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG----CTTTCAGTTTCGGTGCC-ATT-----------------------------------------------------TCACCCCGAACAGCA------------AGACCATCAGACT
droEre2	scaffold_4845:13064860-13064974 +	TGGGTAAC---------------TGGCGAGTCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG----CTTTCAGTTTCGGTGCC-ATT-----------------------------------------------------TCACCCCCAGCACCA------------AGAGCA-CCGACT
droAna3	scaffold_13266:13815719-13815818 +	TGGGAAAT---------------TGTCGAAGCCA------------CTTTGC-GACATTCCCCGTTCTGCGTTGGCCCAAGGTGCACGTGGGGCCGACGACTCTCCGCTTCCGGACCCATT-----------------------------------------------------G---------------------------------CCGAAA
dp4	chr3:6727705-6727891 -	TGGGAAAC---------------TGGCGAGGCG-AGGCGAGGACTCCTCTGC-GACATTCACCGTTCAGCGTTCGGCCAGCGAGCACGTGGGTTACG---CCTGAAGCT------CC-AATTCGGTTACGGTTTgGGgTtgGGgTtgGGgTtgGGGTtgGGgTtgGGgTtgGGTACATCCTCCACACTAGACGGCGGGTTGAGGGGGTCGGACA
droPer1	super_2:6950668-6950854 -	TGGGAAAC---------------TGGCGAGGCG-AGGCGAGGACTCCTCTGC-GACATTCACCGTTCAGCGTTCGGCCAGCGAGCACGTGGGTTACG---CCTGAAGCT------CC-AATTCGGTTACGGTTTgGGgTtgGGgTtgGGgTtgGGGTtgGGgTtgGGgTtgGGTACATCCTCCACACTAGACGGCGGGTTGAGGGGGTCGGACA
droWil1	scaffold_180700:6478759-6478837 -	TGGGAAATACATCTTCGTTTGGCTTTAGTTTCTC------------TTCTGCGGACATTCAATGTTCTGCGTTTGCCCCAAGCGCACGTGG---------------------------------------------------------------------------------------------------------------------------
droVir3	scaffold_12875:2573949-2574010 +	TGGGAAAC---------------TG-CGAAGCTG------------CTTTGC-GACATTCGACTTGCTGCGTTCGTCGCCGACGCACGTGG---------------------------------------------------------------------------------------------------------------------------
droMoj3	scaffold_6496:22657688-22657749 -	TGGGAAAC----------------GGCGAAGCTT------------CTGTGC-GACATTCAACGTTCTGCGTTCGTCGCCGACGCACGTGG---------------------------------------------------------------------------------------------------------------------------
droGri2	scaffold_15112:4702153-4702224 +	TGGGAATT---------------TTGCGAAGCTGCTGCTGTGGCT--GCTGC-GACATTCAACGTTCTGCGTTGGCCGCCGACGCACGTG----------------------------------------------------------------------------------------------------------------------------

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

Species	Coordinate	Lastz Id	Alignment
dm3	chr2R:12782713-12782828 -	NA	TGGGAAAC------TGGCGAA---------TCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGG-CCAG----C------------TTTCAGCTTCGGTGCCATTT-CACCCCGA---GCACCAAGAG-----------------------------------------------------------------CATCAGA---------------------CT
droSim1	chr2R:11518341-11518456 -	1	TGGGAAAC------TGGCGAA---------TCTG------------CTCAGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGG-CCAG----C------------TTTCAGCTTCGGTGCCATTT-CACCCCGA---GCACCAAGAG-----------------------------------------------------------------CATCAGA---------------------CT
droSec1	super_1:10286785-10286900 -	1	TGGGAAAC------TGGCGAA---------TCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGG-CCAG----C------------TTTCAGCTTCGGTGCCATTT-CACCCCGA---GCACCAAGAG-----------------------------------------------------------------TATCAGA---------------------CT
droYak2	chr2R:16191830-16191945 +	1	TGGGAAAC------TGGCGAA---------TCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGG-CCAG----C------------TTTCAGTTTCGGTGCCATTT-CACCCCGA---ACAGCAAGAC-----------------------------------------------------------------CATCAGA---------------------CT
droEre2	scaffold_4845:13064860-13064974 +	1	TGGGTAAC------TGGCGAG---------TCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGG-CCAG----C------------TTTCAGTTTCGGTGCCATTT-CACCCCCA---GCACCAAGAG-----------------------------------------------------------------CA-CCGA---------------------CT
droEug1	scf7180000409672:2349853-2349966 +	1	TGGGAAAC------TGGCGAA---------GCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGG-CCAG----C------------TTTCAGTTTCGGTGCGATTT-CAACCCGA---CTACTAACAG-----------------------------------------------------------------C--CAGA---------------------CT
droBia1	scf7180000301506:2208156-2208269 -	1	TGGGAAAC------TGGCGAT---------GCTG------------CTGTGC-GACATTCACCGTTCTGAGTTGGCCCCAACTGCACGTGGG-CCAG----C------------TTTCAGTTTCGGTGCCATTTAACCCCTGA---ACACCAAGAG--------------------------------------------------------------------CAGC---------------------CC
droTak1	scf7180000415389:316919-317036 -	1	TGGGAAAC------TGTCGAA---------GCTG------------CCCTGC-GACATTCACCGTTCTGAGTTGGCCCCAACTGCACGTGGG-CCAG----C------------TTTCAGTTTCGGTGACATTT-CACCCCGACAAACACCAAAGG--------------------------------------------------------------------CAGACT-------------------AT
droEle1	scf7180000491214:1580257-1580370 +	1	TGGGAAAC------TGGCGTT---------GCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAGTTGCACGTGGG-CCAG----C------------CTTCAGTTTCGGTGCCATTTTCACCCCGA---GTGCCAGGAG--------------------------------------------------------------------CAGA---------------------CT
droRho1	scf7180000780084:554991-555104 +	1	TGGGAAAC------TGGCCAA---------GCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGG-CCAG----C------------TTTCAGTTTCGGTGCCATTTTCACCCCAA---GTGCCAGGAG--------------------------------------------------------------------CAGA---------------------CT
droFic1	scf7180000453948:2648196-2648326 +	1	TGGGAAGC------TGGCGCT---------GCTG------------CCTGGC-GACATTCACCGTTCTGAGTTGGCCCCCGTTGCACGTGGG-CTGG----C------------C--CAGCTACGGTGCTATTA-AGCCTC-A---GCATCGAAGG-----------------------------------------------------------------C---GGACCACCACTACCACAACTGAGACT
droKik1	scf7180000302470:1199420-1199550 -	2	TGGGAAAT------TGGCGAA---------GCTG------------CTCTGC-GACATTCACCGTTCTGCGTTGGCCCCAAGTGCACGTGGG-CCAA----C------------TCTCAGTTACGGTGTAATAA-CAGTGCCA---C-ATCTTAGCCAGATTCCACCACA-------------------TATATCGC------------------------------C---------------------TC
droAna3	scaffold_13266:13815719-13815830 +	1	TGGGAAAT------TGTCGAA---------GCCA------------CTTTGC-GACATTCCCCGTTCTGCGTTGGCCCAAGGTGCACGTGGG-GCCGACGAC------------TCTCCGCTTCCGGACCCAT--------------TGCCGAAAA---------------------------------TACATTCT------------------------------T---------------------CA
droBip1	scf7180000396759:2320923-2321034 -	1	TGGGAAAT------TTGGTAG----AA---GCTGC---------TACTTTGC-GACATTCCCCGTTCTGCGTTGGCCAAAGGTGCACGTGGGGCCGA----C------------TTTCCGCTTCCGGACC-----------TA---TTGCCGAAAA---------------------------------TATAT--------------------------------CC---------------------TT
dp4	chr3:6727705-6727891 -	1	TGGGAAAC------TGGCGAG---------GCGA-GGCGAGGACTCCTCTGC-GACATTCACCGTTCAGCGTTCGGCCAGCGAGCACGTGGG-TTAC----GCCTGAAGCTCCAATTCGGTTACGGTTT------C---------------GGCTACGGCTACGGCTACGGGTACGGCTACGGCTACGGTACATCCTCCACACTAGACGGCGGGTTGAGGGGGTCGGA---------------------CA
droPer1	super_2:6950668-6950854 -	1	TGGGAAAC------TGGCGAG---------GCGA-GGCGAGGACTCCTCTGC-GACATTCACCGTTCAGCGTTCGGCCAGCGAGCACGTGGG-TTAC----GCCTGAAGCTCCAATTCGGTTACGGTTT------C---------------GGCTACGGCTACGGCTACGGGTACGGCTACGGCTACGGTACATCCTCCACACTAGACGGCGGGTTGAGGGGGTCGGA---------------------CA
droWil1	scaffold_180700:6478759-6478837 -	2	TGGGAAATACATCTTCGTTTGGCTTTAGTTTCTC------------TTCTGCGGACATTCAATGTTCTGCGTTTGCCCCAAGCGCACGTGG----------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3	scaffold_12875:2573949-2574010 +	1	TGGGAAAC------TG-CGAA---------GCTG------------CTTTGC-GACATTCGACTTGCTGCGTTCGTCGCCGACGCACGTGG----------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3	scaffold_6496:22657688-22657749 -	2	TGGGAAAC-------GGCGAA---------GCTT------------CTGTGC-GACATTCAACGTTCTGCGTTCGTCGCCGACGCACGTGG----------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2	scaffold_15112:4702153-4702224 +	1	TGGGAATT------TTGCGAA---------GCTGCTGCTGTGGCT--GCTGC-GACATTCAACGTTCTGCGTTGGCCGCCGACGCACGTG-----------------------------------------------------------------------------------------------------------------------------------------------------------------

[View All Possible Orthologs]

Original 12-way multiz alignment with reads super-imposed

Species

Alignment

dm3

TGGGAAAC---------------TGGCGAATCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG----CTTTCAGCTTCGGTGCC-ATT-----------------------------------------------------TCACCCCGAGCACCA------------AGAGCATCAGACT

Size

Hit Count

Total Norm

droSim1

TGGGAAAC---------------TGGCGAATCTG------------CTCAGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG----CTTTCAGCTTCGGTGCC-ATT-----------------------------------------------------TCACCCCGAGCACCA------------AGAGCATCAGACT	Size	Hit Count	Total Norm	V044 Embryo	M023 Head	M024 Male body	M025 Embryo
........................................................ATTCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	1433.00	0.00	1392.00	35.00	6.00
........................................................ATTCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	793.00	0.00	774.00	16.00	3.00
........................................................ATTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	326.00	12.00	282.00	5.00	27.00
........................................................ATTCACCGTTCTGAGTTGGAC.........................................................................................................................................	21	1	38.00	0.00	38.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGG...........................................................................................................................................	19	1	18.00	0.00	18.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGAC..........................................................................................................................................	20	1	15.00	0.00	15.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCCT........................................................................................................................................	22	1	14.00	0.00	14.00	0.00	0.00
........................................................TTTCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	14.00	0.00	13.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTGGCT.........................................................................................................................................	21	1	14.00	0.00	13.00	1.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCCCT.......................................................................................................................................	23	1	9.00	0.00	8.00	1.00	0.00
........................................................TTTCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	6.00	0.00	6.00	0.00	0.00
........................................................ATTCACCGTTCTGAGGTGGCC.........................................................................................................................................	21	1	6.00	0.00	6.00	0.00	0.00
........................................................ATTCACCxTTCTGAGTTGGC..........................................................................................................................................	19	1	5.00	0.00	5.00	0.00	0.00
........................................................ATTCACCTTTCTGAGTTGGC..........................................................................................................................................	20	1	4.00	0.00	4.00	0.00	0.00
........................................................ATTCGCCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	3.00	0.00	3.00	0.00	0.00
........................................................ATTCACCGCTCTGAGTTGGCC.........................................................................................................................................	21	1	3.00	0.00	3.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGA..........................................................................................................................................	20	1	3.00	0.00	1.00	2.00	0.00
........................................................ATTCACCGTTCTTAGTTGGCC.........................................................................................................................................	21	1	3.00	0.00	3.00	0.00	0.00
.......................................................................................................................................................................................GCACCA------------AGAGCATCAGAC.	18	1	3.00	0.00	3.00	0.00	0.00
.........................................................TTCACCGTTCTGAGTTGGCC.........................................................................................................................................	20	1	3.00	0.00	3.00	0.00	0.00
........................................................ATTCACCGTTCTGATTTGGC..........................................................................................................................................	20	1	3.00	0.00	3.00	0.00	0.00
........................................................ATTCACCGTTCTGAGGTGGC..........................................................................................................................................	20	1	2.00	0.00	2.00	0.00	0.00
........................................................ACTCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	2.00	0.00	2.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGG..........................................................................................................................................	20	1	2.00	0.00	2.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTTGCCC........................................................................................................................................	22	1	2.00	0.00	2.00	0.00	0.00
...........................................................GACCGTTCGGAGTTGGCC.........................................................................................................................................	18	1	2.00	0.00	0.00	0.00	2.00
........................................................ATTCACCGTTCTGAGTTGGCCCG.......................................................................................................................................	23	1	2.00	0.00	2.00	0.00	0.00
.....................................................GACATTCACCGTTCTGAGTTGGCCC........................................................................................................................................	25	1	2.00	0.00	1.00	0.00	1.00
..........................................................TCACCGTTCTGAGTTGGCCC........................................................................................................................................	20	1	2.00	0.00	2.00	0.00	0.00
........................................................ATTCACCCTTCTGAGTTGGCC.........................................................................................................................................	21	1	2.00	0.00	2.00	0.00	0.00
.........................................................TTCACCGTTCTGAGTTGGCCC........................................................................................................................................	21	1	2.00	0.00	2.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCCTT.......................................................................................................................................	23	1	2.00	0.00	2.00	0.00	0.00
........................................................ATTCACTGTTCTGAGTTGGCC.........................................................................................................................................	21	1	2.00	0.00	2.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGCCCC........................................................................................................................................	22	1	2.00	0.00	2.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCCA........................................................................................................................................	22	1	2.00	0.00	2.00	0.00	0.00
........................................................ATTCACCGTTCTxAGTTGGCC.........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTTACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTG............................................................................................................................................	18	1	1.00	0.00	1.00	0.00	0.00
........................................................TTTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
.......................................................CATTCACCGTTCTGATTTGGCC.........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCATCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
........................................................ATCCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
.......................................................GATTCACCGTTCTxAGTTGGC..........................................................................................................................................	20	1	1.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCCCC.......................................................................................................................................	23	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTTGGCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGCGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
........................................................ATCCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
.................................................................TCTGAGTTGGCCCCAAGTG..................................................................................................................................	19	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGCTCTGAGTTTGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGGGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGTC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAATTGGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
.......................................................ATTTCACCGTTCTGAGTTGGCC.........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTAGCC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
...........................................................CACCGCTCTGAGTTGGCCC........................................................................................................................................	19	1	1.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGGGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCTT........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTAGCCC........................................................................................................................................	22	1	1.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCCGAGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGGTGGCCT........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
..........................................................TCACCGTTCTGAGTTGGCC.........................................................................................................................................	19	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTATGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTAAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGCTGGC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAATTGGC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTAAGTTGGC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
........................................................CTTCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	1.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGCTCTGAGTTGGAC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGCC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
.........................................................TTCACCGTTCTGAGTTGAC..........................................................................................................................................	19	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTGACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTCCTGAGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGACC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGATGGCC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
............................................................ACCGTTCTGAGTTGGCCC........................................................................................................................................	18	1	1.00	0.00	1.00	0.00	0.00
........................................................ATTCACCGTTCTGAGGTGGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00

droSec1

TGGGAAAC---------------TGGCGAATCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG----CTTTCAGCTTCGGTGCC-ATT-----------------------------------------------------TCACCCCGAGCACCA------------AGAGTATCAGACT	Size	Hit Count	Total Norm	V113 Male body	V114 Embryo	V115 Head
........................................................ATTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	381.00	3.00	157.00	221.00
........................................................ATTCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	147.00	4.00	15.00	128.00
........................................................ATTCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	120.00	0.00	2.00	118.00
........................................................ATTCACCGTTCTGAGTTGGCCT........................................................................................................................................	22	1	20.00	0.00	2.00	18.00
........................................................ATTCACCGTTCTGAGTTGG...........................................................................................................................................	19	1	16.00	0.00	0.00	16.00
...........................................................GACCGTTCGGAGTTGGCC.........................................................................................................................................	18	1	11.00	0.00	10.00	1.00
........................................................ATTCACCGTTCTGAGTTGGCCCT.......................................................................................................................................	23	1	9.00	0.00	1.00	8.00
........................................................TTTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	7.00	0.00	7.00	0.00
........................................................ATTCACCTTTCTGAGTTGGCC.........................................................................................................................................	21	1	2.00	0.00	0.00	2.00
........................................................ACTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	2.00	0.00	0.00	2.00
........................................................ATTCACCGTTCTCAGTTGGCCC........................................................................................................................................	22	1	2.00	0.00	1.00	1.00
...........................................................GACCGTTCGGAGTTGGCCC........................................................................................................................................	19	1	2.00	0.00	2.00	0.00
........................................................ATTCACCGTTCTGAGTTTGCCC........................................................................................................................................	22	1	2.00	0.00	1.00	1.00
........................................................ATTCACCGTTCTGAGTTGGCCCA.......................................................................................................................................	23	1	2.00	0.00	1.00	1.00
........................................................ATTCACCGTTATGAGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	0.00	1.00
.......................................................ATTTCACCGTTCTGAGTTGGCC.........................................................................................................................................	22	1	1.00	0.00	0.00	1.00
........................................................ATTTACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGAGTTG............................................................................................................................................	18	1	1.00	0.00	0.00	1.00
........................................................TTTCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	1.00	0.00	0.00	1.00
..........................................................TCACCGTTCTGAGTTGGCCC........................................................................................................................................	20	1	1.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTGGT..........................................................................................................................................	20	1	1.00	1.00	0.00	0.00
........................................................ATTCACCGTACTGAGTTGACCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00
.........................................................TTCACCGTTCTGAGTTGGCCC........................................................................................................................................	21	1	1.00	0.00	1.00	0.00
..................................................................CTGAGTTGGCCCCAAGTGCACGTG............................................................................................................................	24	1	1.00	0.00	0.00	1.00
........................................................GTTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	1.00	1.00	0.00	0.00
........................................................ATTCACCGTTCCGAGTTGG...........................................................................................................................................	19	1	1.00	0.00	0.00	1.00
........................................................ATTCACCATTCTGAGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTGGGCC........................................................................................................................................	22	1	1.00	0.00	0.00	1.00
........................................................ATTAACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTGGCCCTA......................................................................................................................................	24	1	1.00	0.00	0.00	1.00
.......................................................ATTTCACCGTTCTGAGTTGGCCC........................................................................................................................................	23	1	1.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGGGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	1.00	0.00
........................................................TTTCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	1.00
...............................................................................AAGTGCACGTGGGCCAG----CT................................................................................................................	19	1	1.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTGGCCA........................................................................................................................................	22	1	1.00	0.00	1.00	0.00
........................................................ATTAACCGTCCTGAGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	0.00	1.00
........................................................ATTGACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTTGCCCT.......................................................................................................................................	23	1	1.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTGACCC........................................................................................................................................	22	1	1.00	0.00	0.00	1.00
........................................................ATTCACCGTTCCGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTCGC..........................................................................................................................................	20	1	1.00	0.00	0.00	1.00
............................................................................CCCAAGTGCACGTGGGCCAG----C.................................................................................................................	21	1	1.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGGTGGCCC........................................................................................................................................	22	1	1.00	0.00	0.00	1.00

droYak2

TGGGAAAC---------------TGGCGAATCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG----CTTTCAGTTTCGGTGCC-ATT-----------------------------------------------------TCACCCCGAACAGCA------------AGACCATCAGACT	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
........................................................ATTCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	497.00	0.00	16.00	1.00	13.00	467.00
........................................................ATTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	304.00	8.00	8.00	0.00	19.00	269.00
........................................................ATTCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	260.00	2.00	23.00	1.00	41.00	193.00
........................................................ATTCACCGTTCTGAGTTGG...........................................................................................................................................	19	1	30.00	0.00	3.00	1.00	18.00	8.00
........................................................ATTCACCGTTCTGAGTTGGCCCT.......................................................................................................................................	23	1	16.00	0.00	0.00	0.00	0.00	16.00
........................................................ATTCACCGTTCTGAGTTGGAC.........................................................................................................................................	21	1	10.00	0.00	0.00	0.00	0.00	10.00
........................................................ATTCACCGTTCTGAGTTGAC..........................................................................................................................................	20	1	7.00	0.00	0.00	0.00	0.00	7.00
........................................................TTTCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	5.00	0.00	0.00	0.00	0.00	5.00
...........................................................................................GCCAG----CTTTCAGTTTCGGTGCC-A...............................................................................................	23	1	5.00	5.00	0.00	0.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCCCC.......................................................................................................................................	23	1	4.00	0.00	0.00	0.00	0.00	4.00
........................................................ATTCACCGTTCTGAGTTGGCCCA.......................................................................................................................................	23	1	4.00	1.00	0.00	0.00	1.00	2.00
........................................................ATTCACCGCTCTGAGTTGGCC.........................................................................................................................................	21	1	4.00	0.00	0.00	0.00	0.00	4.00
........................................................ATTCACCGTTCTGAGTTGGCCCTT......................................................................................................................................	24	1	4.00	0.00	0.00	0.00	0.00	4.00
........................................................TTTCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	3.00	0.00	0.00	0.00	0.00	3.00
........................................................ATTCACCGTTCTGAGTTGGG..........................................................................................................................................	20	1	3.00	0.00	0.00	0.00	0.00	3.00
...........................................................CACCGTTCTGAGTTGGCCC........................................................................................................................................	19	1	3.00	0.00	0.00	0.00	0.00	3.00
........................................................ATTCACCGTTCTGATTTGGC..........................................................................................................................................	20	1	3.00	0.00	0.00	0.00	0.00	3.00
........................................................TTTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	2.00	0.00	0.00	0.00	0.00	2.00
........................................................ATTCACCGTTCTGAGTTGGCCG........................................................................................................................................	22	1	2.00	0.00	0.00	0.00	0.00	2.00
........................................................ATTCACCGTTCTGAGTTGGCCT........................................................................................................................................	22	1	2.00	0.00	0.00	0.00	1.00	1.00
........................................................ATTCACTGTTCTGAGTTGGCCC........................................................................................................................................	22	1	2.00	0.00	0.00	0.00	0.00	2.00
........................................................ATTCACCGTTCTGAGTTGGCCCG.......................................................................................................................................	23	1	2.00	0.00	0.00	0.00	0.00	2.00
........................................................ATTCACCGTTCTGAGTCGGC..........................................................................................................................................	20	1	2.00	0.00	0.00	0.00	2.00	0.00
.........................................................TTCACCGTTCTGAGTTGGCCC........................................................................................................................................	21	1	2.00	0.00	0.00	0.00	0.00	2.00
........................................................ATTCACCGTTCTGAGTTGCCC.........................................................................................................................................	21	1	2.00	0.00	0.00	0.00	1.00	1.00
........................................................ATTCACCGTTCTGAGTTGGCCTT.......................................................................................................................................	23	1	2.00	0.00	0.00	0.00	0.00	2.00
........................................................ATTCACCGGTCTGAGTTGGC..........................................................................................................................................	20	1	2.00	0.00	0.00	0.00	1.00	1.00
........................................................ATTCACCGTTCTGAGGTGGCC.........................................................................................................................................	21	1	2.00	0.00	0.00	0.00	0.00	2.00
........................................................ATTCACCGTTCTGAGTTGGCT.........................................................................................................................................	21	1	2.00	0.00	0.00	0.00	1.00	1.00
........................................................ATTCACAGTTCTGAGTTGGCCCT.......................................................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTTACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGGGCTGAGTTGGC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
........................................................ATTCAACGTTCTGAGTTGG...........................................................................................................................................	19	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGAGTTGGT..........................................................................................................................................	20	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACAGTTCTGAGTTGGCCC........................................................................................................................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
........................................................GTTCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCATCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGTGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGAGCTGTCCC........................................................................................................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
.................................................................................GTGCGCGTGGGCCAG----CG................................................................................................................	17	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ACTCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
........................................................ATTCACCGTTCTGAGATCGC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
........................................................ATTCACCGGTCTGAGxTGGCCC........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCTTTCTGAGTTGGAC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGATGGCCCT.......................................................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGCGTTGG...........................................................................................................................................	19	1	1.00	0.00	1.00	0.00	0.00	0.00
........................................................ATTCACCGTTCTTAGTTGGC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCCCAC......................................................................................................................................	24	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCCGAGCTGGCCC........................................................................................................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCA.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGGGTTGGCCC........................................................................................................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGAGTTGGTC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCCGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCCTA.......................................................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGGTGGCCTC.......................................................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGCTCTGAGTTGGC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
........................................................ATCCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTTGC..........................................................................................................................................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGAGTTAGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTTGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGGTCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGGGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGCCTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGAGTTGTC..........................................................................................................................................	20	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGCTCTGACTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCCGAGTTGGC..........................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCCCTC......................................................................................................................................	24	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTATGAGTTGGCTC........................................................................................................................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
...........................................................................................GCCAG----CTTTCAGTTTCGGTGCC-AT..............................................................................................	24	1	1.00	1.00	0.00	0.00	0.00	0.00
........................................................ATCCACCGTTCTGAGTTGG...........................................................................................................................................	19	1	1.00	0.00	0.00	0.00	1.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCG.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGATTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTCCTGAGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTGGCCA........................................................................................................................................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
.......................................................ATTTCACCGTTCTGAGTTGGC..........................................................................................................................................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................ATTCACCGTTCTGAGTTGGCAC........................................................................................................................................	22	1	1.00	0.00	0.00	0.00	0.00	1.00
........................................................AGTCATCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	1.00	1.00	0.00	0.00	0.00	0.00
........................................................ATTCACCGTTCTGCGTTGGCC.........................................................................................................................................	21	1	1.00	0.00	1.00	0.00	0.00	0.00
............................................................ACCGTTCTGAGTTGGCC.........................................................................................................................................	17	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................ACCCTTCTGAGTTTGC..........................................................................................................................................	16	1	1.00	0.00	0.00	0.00	1.00	0.00
......................................................AxTTTGACCGTTCTGAGTTGGCC.........................................................................................................................................	22	1	1.00	0.00	0.00	0.00	1.00	0.00

droEre2

TGGGTAAC---------------TGGCGAGTCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG----CTTTCAGTTTCGGTGCC-ATT-----------------------------------------------------TCACCCCCAGCACCA------------AGAGCA-CCGACT	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
........................................................ATTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	1022.00	12.00	56.00	0.00	954.00
........................................................ATTCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	372.00	2.00	29.00	0.00	341.00
........................................................ATTCACCGTTCTGAGTTGGC..........................................................................................................................................	20	1	264.00	0.00	20.00	0.00	244.00
........................................................ATTCACCGTTCTGAGTTGGCCT........................................................................................................................................	22	1	36.00	0.00	2.00	0.00	34.00
........................................................ATTCACCGTTCTGAGTTGGCCCT.......................................................................................................................................	23	1	28.00	0.00	2.00	0.00	26.00
........................................................ATTCACCGTTCTGAGTTGG...........................................................................................................................................	19	1	18.00	0.00	4.00	0.00	14.00
........................................................ATTCACCGTTCTGAGTTGGCCA........................................................................................................................................	22	1	16.00	0.00	1.00	0.00	15.00
........................................................ATTCACCGTTCTGAGTTTGCCC........................................................................................................................................	22	1	16.00	2.00	0.00	0.00	14.00
...........................................................................................GCCAG----CTTTCAGTTTCGGTGCC-AT..............................................................................................	24	1	15.00	4.00	2.00	0.00	9.00
........................................................TTTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	14.00	0.00	1.00	0.00	13.00
........................................................ATTCACCGTTCTTAGTTGGCCC........................................................................................................................................	22	1	13.00	0.00	0.00	0.00	13.00
........................................................ATTCACCGTTCTGAGTTGTCCC........................................................................................................................................	22	1	13.00	0.00	2.00	0.00	11.00
........................................................ATTAACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	12.00	0.00	0.00	0.00	12.00
........................................................ATTCACCTTTCTGAGTTGGCCC........................................................................................................................................	22	1	11.00	1.00	1.00	0.00	9.00
........................................................ATTCACAGTTCTGAGTTGGCCC........................................................................................................................................	22	1	10.00	1.00	0.00	0.00	9.00
........................................................ATTCACCGTTCTGAGTTGGCCCA.......................................................................................................................................	23	1	10.00	0.00	1.00	0.00	9.00
...........................................................................................GCCAG----CTTTCAGTTTCGGTGCC-A...............................................................................................	23	1	8.00	4.00	0.00	0.00	4.00
........................................................TTTCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	6.00	0.00	0.00	0.00	6.00
........................................................ATTCACCGTTCTGAGTTGCC..........................................................................................................................................	20	1	6.00	0.00	0.00	0.00	6.00
........................................................ATTCACCGTTCTGAGTTTGCC.........................................................................................................................................	21	1	5.00	0.00	1.00	0.00	4.00
........................................................ATTCACCGTTCTGAGTTGGCAC........................................................................................................................................	22	1	5.00	0.00	0.00	0.00	5.00
........................................................ATTCACCTTTCTGAGTTGGCC.........................................................................................................................................	21	1	4.00	0.00	0.00	0.00	4.00
.........................................................TTCACCGTTCTGAGTTGGCCC........................................................................................................................................	21	1	4.00	0.00	0.00	0.00	4.00
........................................................ATTCACCGTTCTGAGTTGGCCCC.......................................................................................................................................	23	1	4.00	0.00	0.00	0.00	4.00
........................................................ATTCACCGTTATGAGTTGGCCC........................................................................................................................................	22	1	4.00	0.00	0.00	0.00	4.00
........................................................ATTCACCGTTCTTAGTTGGCC.........................................................................................................................................	21	1	4.00	0.00	0.00	0.00	4.00
........................................................ATTCACCGTTCTGAGTTGGACC........................................................................................................................................	22	1	3.00	0.00	0.00	0.00	3.00
........................................................ATTCACCGTTCCGAGTTGGCCC........................................................................................................................................	22	1	3.00	0.00	0.00	0.00	3.00
........................................................ATTCACCGTTCTGAGTTGTCC.........................................................................................................................................	21	1	3.00	0.00	0.00	0.00	3.00
........................................................ATTCACCGTTCTGGGTTGGCCC........................................................................................................................................	22	1	3.00	0.00	1.00	0.00	2.00
........................................................ATTCACCGTTCTGAGTTTGC..........................................................................................................................................	20	1	3.00	0.00	2.00	0.00	1.00
........................................................ATTCACCGTTATGAGTTGGCC.........................................................................................................................................	21	1	3.00	0.00	0.00	0.00	3.00

droAna3

TGGGAAAT---------------TGTCGAAGCCA------------CTTTGC-GACATTCCCCGTTCTGCGTTGGCCCAAGGTGCACGTGGGGCCGACGACTCTCCGCTTCCGGACCCATT-----------------------------------------------------G---------------------------------CCGAAA	Size	Hit Count	Total Norm	V105 Male body	V106 Head	V055 Unknown	V039 Embryo
........................................................ATTCACCGTTCTGAGTTGGCC.........................................................................................................................................	21	1	3.00	0.00	3.00	0.00	0.00
........................................................ATTCACCGTTCTGAGTTGGCCC........................................................................................................................................	22	1	2.00	0.00	1.00	0.00	1.00
...................................................................................GCACGTGGGGCCGACGACTCTCC............................................................................................................	23	1	1.00	0.00	1.00	0.00	0.00
.................................................................................................CGACTCACCGCTTxCGGACCC................................................................................................	20	1	1.00	0.00	0.00	1.00	0.00
................................................................TTCTGCGTTGGCCCAAGGTGCACG..............................................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
.................................................................................GTGCACGTGGGGCCGACGACTCTCC............................................................................................................	25	1	1.00	0.00	1.00	0.00	0.00

dp4

TGGGAAAC---------------TGGCGAGGCG-AGGCGAGGACTCCTCTGC-GACATTCACCGTTCAGCGTTCGGCCAGCGAGCACGTGGGTTACG---CCTGAAGCT------CC-AATTCGGTTACGGTTTgGGgTtgGGgTtgGGgTtgGGGTtgGGgTtgGGgTtgGGTACATCCTCCACACTAGACGGCGGGTTGAGGGGGTCGGACA	Size	Hit Count	Total Norm	V112 Male body	V043 Embryo	V051 Head	M022 Male body
.......................................................................................................................................................ATGGGTTGGGGTTGGGGTTGGG.........................................	22	5	2.00	1.80	0.00	0.20	0.00
...........................................................................................................................................ATGGGTTGGGGTTGGGGTTGGG.....................................................	22	5	2.00	1.80	0.00	0.20	0.00
.................................................................................................................................................ATGGGTTGGGGTTGGGGTTGGG...............................................	22	5	2.00	1.80	0.00	0.20	0.00
.....................................................................................................................................ATGGGTTGGGGTTGGGGTTGGG...........................................................	22	5	2.00	1.80	0.00	0.20	0.00
...............................................................................................................................ATGGGTTGGGGTTGGGGTTGGG.................................................................	22	5	2.00	1.80	0.00	0.20	0.00
....................................................................................................................................TTGGGGTGGTGGTTGGGG................................................................	18	4	1.25	1.25	0.00	0.00	0.00
.....................................................................................................................................TGGGGTTGGGGTTGGGGTCGGG...........................................................	22	4	1.25	1.25	0.00	0.00	0.00
............................................................................................................................................TGGGTTGGGGTTGGGGTTGGGG....................................................	22	5	1.00	0.80	0.00	0.20	0.00
........................................................................................................................................................TGGGTTGGGGTTGGGGTTGGGG........................................	22	5	1.00	0.80	0.00	0.20	0.00
......................................................................................................................................TGGGTTGGGGTTGGGGTTGGGG..........................................................	22	5	1.00	0.80	0.00	0.20	0.00
..................................................................................................................................................TGGGTTGGGGTTGGGGTTGGGG..............................................	22	5	1.00	0.80	0.00	0.20	0.00
................................................................................................................................................TTGGGGTGGTGGTTGGGG....................................................	18	4	1.25	1.25	0.00	0.00	0.00
......................................................................................................................................................TTGGGGTGGTGGTTGGGG..............................................	18	4	1.25	1.25	0.00	0.00	0.00
................................................................................................................................TGGGTTGGGGTTGGGGTTGGGG................................................................	22	5	1.00	0.80	0.00	0.20	0.00
.......................................................................................................................................................TGGGGTTGGGGTTGGGGTCGGG.........................................	22	4	1.25	1.25	0.00	0.00	0.00
..........................................................................................................................................TTGGGGTGGTGGTTGGGG..........................................................	18	4	1.25	1.25	0.00	0.00	0.00
...........................................................................................................................................TGGGGTTGGGGTTGGGGTCGGG.....................................................	22	4	1.25	1.25	0.00	0.00	0.00
.................................................................................................................................................TGGGGTTGGGGTTGGGGTCGGG...............................................	22	4	1.25	1.25	0.00	0.00	0.00
........................................................................................................................................................TGGGTTGGGGTTGGGGTTGGG.........................................	21	5	0.60	0.20	0.00	0.40	0.00
......................................................................................................................................TGGGTTGGGGTTGGGGTTGGG...........................................................	21	5	0.60	0.20	0.00	0.40	0.00
............................................................................................................................................TGGGTTGGGGTTGGGGTTGGG.....................................................	21	5	0.60	0.20	0.00	0.40	0.00
................................................................................................................................TGGGTTGGGGTTGGGGTTGGG.................................................................	21	5	0.60	0.20	0.00	0.40	0.00
..................................................................................................................................................TGGGTTGGGGTTGGGGTTGGG...............................................	21	5	0.60	0.20	0.00	0.40	0.00

droPer1

TGGGAAAC---------------TGGCGAGGCG-AGGCGAGGACTCCTCTGC-GACATTCACCGTTCAGCGTTCGGCCAGCGAGCACGTGGGTTACG---CCTGAAGCT------CC-AATTCGGTTACGGTTTgGGgTtgGGgTtgGGgTtgGGGTtgGGgTtgGGgTtgGGTACATCCTCCACACTAGACGGCGGGTTGAGGGGGTCGGACA	Size	Hit Count	Total Norm	V111 Male body	V042 Embryo	V050 Head	V057 Head	M021 Embryo
........................................................................................................................................................TGGGTTGGGGTTGGGGTTGGG.........................................	21	5	1.60	1.60	0.00	0.00	0.00	0.00
..................................................................................................................................................TGGGTTGGGGTTGGGGTTGGG...............................................	21	5	1.60	1.60	0.00	0.00	0.00	0.00
................................................................................................................................TGGGTTGGGGTTGGGGTTGGG.................................................................	21	5	1.60	1.60	0.00	0.00	0.00	0.00
......................................................................................................................................TGGGTTGGGGTTGGGGTTGGG...........................................................	21	5	1.60	1.60	0.00	0.00	0.00	0.00
............................................................................................................................................TGGGTTGGGGTTGGGGTTGGG.....................................................	21	5	1.60	1.60	0.00	0.00	0.00	0.00
.....................................................................................................................................TGGGGTTGGGGTTGGGGTCGGG...........................................................	22	4	1.25	1.00	0.00	0.00	0.25	0.00
............................................................................................................................................GGGGTTGGGGTTGGGGTCGGGC....................................................	22	4	1.25	1.25	0.00	0.00	0.00	0.00
.......................................................................................................................................................TGGGGTTGGGGTTGGGGTCGGG.........................................	22	4	1.25	1.00	0.00	0.00	0.25	0.00
.................................................................................................................................GGGTTGGGGTTGGGGTTGGG.................................................................	20	5	1.00	1.00	0.00	0.00	0.00	0.00
...................................................................................................................................................GGGTTGGGGTTGGGGTTGGG...............................................	20	5	1.00	1.00	0.00	0.00	0.00	0.00
......................................................................................................................................GGGGTTGGGGTTGGGGTCGGGC..........................................................	22	4	1.25	1.25	0.00	0.00	0.00	0.00
...........................................................................................................................................TGGGGTTGGGGTTGGGGTCGGG.....................................................	22	4	1.25	1.00	0.00	0.00	0.25	0.00
.........................................................................................................................................................GGGTTGGGGTTGGGGTTGGG.........................................	20	5	1.00	1.00	0.00	0.00	0.00	0.00
........................................................................................................................................................GGGGTTGGGGTTGGGGTCGGGC........................................	22	4	1.25	1.25	0.00	0.00	0.00	0.00
.............................................................................................................................................GGGTTGGGGTTGGGGTTGGG.....................................................	20	5	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................................................................................................TGGGGTTGGGGTTGGGGTCGGG...............................................	22	4	1.25	1.00	0.00	0.00	0.25	0.00
..................................................................................................................................................GGGGTTGGGGTTGGGGTCGGGC..............................................	22	4	1.25	1.25	0.00	0.00	0.00	0.00
.......................................................................................................................................GGGTTGGGGTTGGGGTTGGG...........................................................	20	5	1.00	1.00	0.00	0.00	0.00	0.00
......................................................................................................................................GGGGTTGGGGTTGGGGTCGGG...........................................................	21	4	1.00	1.00	0.00	0.00	0.00	0.00
............................................................................................................................................GGGGTTGGGGTTGGGGTCGGG.....................................................	21	4	1.00	1.00	0.00	0.00	0.00	0.00
........................................................................................................................................................GGGGTTGGGGTTGGGGTCGGG.........................................	21	4	1.00	1.00	0.00	0.00	0.00	0.00
..................................................................................................................................................GGGGTTGGGGTTGGGGTCGGG...............................................	21	4	1.00	1.00	0.00	0.00	0.00	0.00
.....................................................................................................................................TGGGGTTGGGGTTGGGGTCGGGC..........................................................	23	4	0.75	0.75	0.00	0.00	0.00	0.00
..............................................................................................................................................GGTTGGGGTCGGGGTTCG......................................................	18	4	0.75	0.75	0.00	0.00	0.00	0.00
.......................................................................................................................................................TGGGGTTGGGGTTGGGGTCGGGC........................................	23	4	0.75	0.75	0.00	0.00	0.00	0.00
........................................................................................................................................GGTTGGGGTCGGGGTTCG............................................................	18	4	0.75	0.75	0.00	0.00	0.00	0.00
.............................................................................................................................................GGGTTGGGGTTGGGGTTGGGGT...................................................	22	4	0.75	0.75	0.00	0.00	0.00	0.00
....................................................................................................................................................GGTTGGGGTCGGGGTTCG................................................	18	4	0.75	0.75	0.00	0.00	0.00	0.00
.......................................................................................................................................GGGTTGGGGTTGGGGTTGGGGT.........................................................	22	4	0.75	0.75	0.00	0.00	0.00	0.00
...........................................................................................................................................TGGGGTTGGGGTTGGGGTCGGGC....................................................	23	4	0.75	0.75	0.00	0.00	0.00	0.00
...................................................................................................................................................GGGTTGGGGTTGGGGTTGGGGT.............................................	22	4	0.75	0.75	0.00	0.00	0.00	0.00
..........................................................................................................................................................GGTTGGGGTCGGGGTTCG..........................................	18	4	0.75	0.75	0.00	0.00	0.00	0.00
.................................................................................................................................GGGTTGGGGTTGGGGTTGGGGT...............................................................	22	4	0.75	0.75	0.00	0.00	0.00	0.00
.................................................................................................................................................TGGGGTTGGGGTTGGGGTCGGGC..............................................	23	4	0.75	0.75	0.00	0.00	0.00	0.00

droWil1

TGGGAAATACATCTTCGTTTGGCTTTAGTTTCTC------------TTCTGCGGACATTCAATGTTCTGCGTTTGCCCCAAGCGCACGTGG---------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	V117 Male body	V118 Embryo	V119 Head	M020 Head
............TTTCGTTTGGCTTAAGTT........................................................................................................................................................................................	18	2	19.00	4.00	1.00	0.00	14.00
...........TTTTCGTTTGGCTTAAGTT........................................................................................................................................................................................	19	2	10.00	1.50	1.00	0.00	7.50
...........TTTTCGTTTGGCTTAAGT.........................................................................................................................................................................................	18	2	3.00	0.00	0.00	0.00	3.00
..........TTCTTCGTTTGGCTTAAGTT........................................................................................................................................................................................	20	2	1.00	0.00	0.00	0.00	1.00
.........TATCTTCGTTTGGCTTAAGTT........................................................................................................................................................................................	21	2	0.50	0.50	0.00	0.00	0.00

droVir3

TGGGAAAC---------------TG-CGAAGCTG------------CTTTGC-GACATTCGACTTGCTGCGTTCGTCGCCGACGCACGTGG---------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	V116 Male body	V053 Unknown	V047 Embryo	M027 Male body	M028 Head
..........................................................TCGACTTGCTGCGTTCGAC.........................................................................................................................................	19	1	1.00	0.00	0.00	0.00	0.00	1.00

droMoj3

TGGGAAAC----------------GGCGAAGCTT------------CTGTGC-GACATTCAACGTTCTGCGTTCGTCGCCGACGCACGTGG---------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	V110 Male body	V056 Unknown	V049 Head	V041 Embryo
..........................................................TCAACGTTCTGCGTTCGTCGCC......................................................................................................................................	22	1	1.00	0.00	0.00	1.00	0.00
.............................................................ACGTTCTTCGTTCGTCGCG......................................................................................................................................	19	1	1.00	0.00	1.00	0.00	0.00

droGri2

TGGGAATT---------------TTGCGAAGCTGCTGCTGTGGCT--GCTGC-GACATTCAACGTTCTGCGTTGGCCGCCGACGCACGTG----------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	V109 Male body
..................................CTGCTGGGGCT--GCTGC-GGC..............................................................................................................................................................	19	1	1.00	1.00

12-way Secondary Structure

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

20-way Secondary Structure

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