dme-mir-1004- 12- and 20-way alignments

dme-mir-1004	chr2L:3767621-3767688 +	Known_mirbase
[View on miRBase]	[View on UCSC Genome Browser {Cornell Mirror}]	mirtron

Legend:

   mature strand at position 3767667-3767688
   star strand at position 3767621-3767643
   mutations
   read mismatches
   coordinate mismatch (possible incorrect ortholog)

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

Species	Coordinate	Alignment
dm3	chr2L:3767606-3767703 +	GTGGCTGGACAAAAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCACGGTGCTTGTA
droSim1	chr2L:3722744-3722841 +	GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCGCGGTGCTTGTA
droSec1	super_5:1870685-1870782 +	GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCTGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCGCGGTGCTTGTA
droYak2	chr2L:3769291-3769388 +	GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCGCGATGTTTGTA
droEre2	scaffold_4929:3814030-3814127 +	GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCAATCTCTCACATCACTT---CCCTCACAGTGCGCGGTGCTTGTA
droAna3	scaffold_12916:5837615-5837739 +	GTGGCTGGACAAGAGGT-GAGATAACACGTT-----CTAACCAACTGATATGAAACTA------CGAATGTTTTTATCGCTGTCGATTCGAAC--------------------GA-----TCTCTCATATAACCGTACCTATTACAGTGCGCGGTGTCTGTA
dp4	chr4_group3:4962038-4962146 -	GTGGCTGGACAAGAGGTGTGTGGG--ATACTGATTTTAGAGAAAAAAAAA----------A----------------------CCAT-T--AACGTGAGG--------------CTTCG-TTTCTCACATCATTT-TCCCCTCACAGTGCCCGGTGCCTGTA
droPer1	super_1:6454682-6454788 -	GTGGCTGGACAAGAGGTGTGTGGG--ATACTGATTTTAGAGAAAA------------ATAA----------------------CCAT-T--AACGTGAGG--------------CTTCG-TTTCTCACATCATTT-TCCCCTCACAGTGCCCGGTGCCTGTA
droWil1	scaffold_180708:9298763-9298869 -	ATGGTTGGATAAAAGGT--GGGGT--ACAACAACAACAAAAAT--------------A-------------------------CGAATATAATGGT-AAACTCTC-------TCTCTCAT---CTCTTATCATTT-TCTCCTCACAGTGCGCGTTCACTTTA
droVir3	scaffold_12963:14941260-14941364 -	GTGGCTGGACAAAAGGT-TGGGGC--ACATTGATCTTCAAGAAACTCACAGCCA---G-------------------------CTCATT------------------------TACTCACTCTCTCTC-TCTTCT-CTCCCTCACAGTGCCCGCTGTCTGTA
droMoj3	scaffold_6500:17898451-17898546 -	GTGGCTGGACAAGAGGT-AATTGATCACTCctatctctgtct-----------------------------------------ctctttctct--------------------ttctgactctctccca-ctctt---tATTTGTAGTGCTCGCTGCCTGTA
droGri2	scaffold_15126:4437367-4437497 +	GTGGCTGGACAAAAGGT-AGGAGAGCACATTGATCTTGAAGAAACTTGCAGAAA---A--CTCTCTAATACTCTCAC---------TCCATTT------------CTCTAACTCTCCCTCTCTCTTATTTAACTT---C-ATTTTAGTGCGCGCTGTTTATA

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

Species	Coordinate	Lastz Id	Alignment
dm3	chr2L:3767606-3767703 +	NA	GTGGCTGGACAAAAGGT-TGGGGG--ACATTGATCTCGGAGAC---------------------------------GGCGGTT----TAACTGATCCATT-----CTCTCACATCACT---T--CCCTCACAGTGCACGGTGCTTGTA
droSim1	chr2L:3722744-3722841 +	3	GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGAC---------------------------------GGCGGTT----TAACTGATCCATT-----CTCTCACATCACT---T--CCCTCACAGTGCGCGGTGCTTGTA
droSec1	super_5:1870685-1870782 +	12	GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCTGAGAC---------------------------------GGCGGTT----TAACTGATCCATT-----CTCTCACATCACT---T--CCCTCACAGTGCGCGGTGCTTGTA
droYak2	chr2L:3769291-3769388 +	3	GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGAC---------------------------------GGCGGTT----TAACTGATCCATT-----CTCTCACATCACT---T--CCCTCACAGTGCGCGATGTTTGTA
droEre2	scaffold_4929:3814030-3814127 +	283	GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGAC---------------------------------GGCGGTT----TAACTGATCCAAT-----CTCTCACATCACT---T--CCCTCACAGTGCGCGGTGCTTGTA
droEug1	scf7180000409554:2307491-2307593 -	150	GTGGCTGGACAAAAGGT-TGGGGG--ACACTGATCTCGGAGATCGCTGAT----------------------------CCGAT----TTACTGATCTATT-----CTCTCACATCACT---T--CCCTCACAGCGCGCGGTGCCTGTA
droBia1	scf7180000302261:2154110-2154211 +	20	GTGGCTGGACAAGAGGT-TGGGGG--ACACTGATCTCGGAGACTG---AT-----------------C------C--ATT-CC----TTACTGATCCACT-----CTCTCACATCACT---T--CCCTCACAGTGCGCGGTGCTTGTA
droTak1	scf7180000415709:76418-76520 -	18	GTGGCTGGACAAAAGGT-TGGGGG--ACACTGATCTCGGAGACTG---AT----------------CC----------CGATC---TTTACTGATCCATT-----CTCTCACATCACT---T--CCCTCACAGTGCGCGGTGCTTGTA
droEle1	scf7180000490728:519645-519748 +	18	GTGGCTGGACAAAAGGT-GCGGTT--TCATTGATCTTGGAGACCT---TT-----------------T------C-GACTATC----CTAGTGATCCATT-----CTCTCACATCACT---T--CCCTTATAGCGCGAGGTGCCTGTA
droRho1	scf7180000777886:5849-5946 -	29	GTGGCTGGACAAAAGGT-TGGGGG--ACATTGATCTTGGAGAC---------------------------------GGCTGGC----TTACTGATCCATT-----CTCTCACATCACT---T--CCCTCACAGCGCGCGGTGCCTGTA
droFic1	scf7180000453924:1748603-1748705 +	10	GTGGCTGGACAAGAGGT-TGGGGG--ACACTGATCTCGGAGAATC---GC-----------------T------C--ATTCGC----TCACTGATCCATT-----CTCTCACATCTCT---T--CCCTCACAGCGCGCGGGGCCTGTA
droKik1	scf7180000302401:685585-685686 +	29	GTGGCTCGACAAGAGGT--GAAGG--ACACTGATCTTAGAGAAAG---GC----------------AA------C-AGCAAAT----TATATG--TAATT-----CTCTCACATCACT---T--CCTTCACAGTGCGAGGTGCTTGTA
droAna3	scaffold_12916:5837615-5837739 +	2	GTGGCTGGACAAGAGGT-GAGATA--ACACG-TTCTAACCAACTG---ATATGAAACTACGAATGTTTTTATCGCTGTCGATT----CGAACGA-----T-----CTCTCATATAACCGTAC--CTATTACAGTGCGCGGTGTCTGTA
droBip1	scf7180000396568:1004375-1004463 -	52	GTGGCTGGACAAGAGGT-ACG-------ATCGAATCT----------------------------------------CTCGTA----TAATTCAAACGAT-----CTCTCATATAACCGTCT--CTCCTACAGTGCCCGGTGTTTGTA
dp4	chr4_group3:4962038-4962146 -	59	GTGGCTGGACAAGAGGTGTGTGGG--ATACTGATTTTAGAGAAAA---AA----AAAA---------C--------CATTAAC----GTGAGGCTTCG-T-----TTCTCACATCATT---TTCCCCTCACAGTGCCCGGTGCCTGTA
droPer1	super_1:6454682-6454788 -	54	GTGGCTGGACAAGAGGTGTGTGGG--ATACTGATTTTAGAGAAAA---AT----------------AA------C-CATTAAC----GTGAGGCTTCG-T-----TTCTCACATCATT---TTCCCCTCACAGTGCCCGGTGCCTGTA
droWil1	scaffold_180708:9298763-9298869 -	270	ATGGTTGGATAAAAGGT--GGGGT--ACAACAACAACAAAAATAC---------------GAATATAA------T-GGTAAAC----TCTC--------TCTCTCATCTCTTATCATT---TTCTCCTCACAGTGCGCGTTCACTTTA
droVir3	scaffold_12963:14941260-14941364 -	673	GTGGCTGGACAAAAGGT-TGGGGC--ACATTGATCTTCAAGAAAC---TC-----------------A------C-AGCCAGC----TCATTTACTCACT-----CTCTCTCTCTTCT----CTCCCTCACAGTGCCCGCTGTCTGTA
droMoj3	scaffold_6500:17898451-17898546 -	546	GTGGCTGGACAAGAGGT-AATTGATCACTCCTATCTCTGTCTC------------------------------------TCTTTCTCTTTCTG----ACT-----CTCTCCCA-CTCT---T--TATTTGTAGTGCTCGCTGCCTGTA
droGri2	scaffold_15112:3331138-3331230 -	580	T-ATCTGTATAGATAGA-TGTAT---ATATTATTGAT--CAGCAG---CAG---AAGT---------T------C-AGCAAGT----TCG-------ATT-----TTCTGTTAACAAA---T--GACATCCA------GCTTTTGATA

[View All Possible Orthologs]

Original 12-way multiz alignment with reads super-imposed

Species

Alignment

dm3

GTGGCTGGACAAAAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCACGGTGCTTGTA

Size

Hit Count

Total Norm

droSim1

GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCGCGGTGCTTGTA	Size	Hit Count	Total Norm	V044 Embryo	M023 Head	M024 Male body	M025 Embryo
..........................................................................................................................TCTCACATCACTT---CCCTCACAG...............	22	1	1133.00	26.00	994.00	20.00	93.00
...............GT-TGGGGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	728.00	16.00	444.00	55.00	213.00
...............GT-TGGGGG--ACATTGATCTCGGAG.........................................................................................................................	23	1	132.00	3.00	107.00	18.00	4.00
...............GT-TGGGGG--ACATTGATCTCGGA..........................................................................................................................	22	1	122.00	0.00	92.00	22.00	8.00
..........................................................................................................................TCTCACATCACTT---CCCTCACA................	21	1	101.00	1.00	97.00	2.00	1.00
...............GT-TGGGGG--ACATTGATCTCGGAGG........................................................................................................................	24	1	91.00	0.00	46.00	9.00	36.00
...............GT-TGGGGG--ACATTGATCTCGGAGAA.......................................................................................................................	25	1	25.00	1.00	21.00	2.00	1.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAC...............	22	1	20.00	0.00	19.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGA..............	22	1	16.00	0.00	14.00	1.00	1.00
...............GT-TGGGGG--ACATTGATCTCGGG..........................................................................................................................	22	1	11.00	0.00	10.00	1.00	0.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGT..............	22	1	10.00	3.00	6.00	1.00	0.00
...........................................................................................................................CTCACATCACTT---CCCTCACAG...............	21	1	10.00	0.00	10.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTCAC.................	20	1	9.00	0.00	9.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAGC........................................................................................................................	24	1	9.00	0.00	5.00	1.00	3.00
...............GT-TGGGGG--ACATTGATCTCGGAA.........................................................................................................................	23	1	8.00	0.00	6.00	2.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAGACG-------------.........................................................................................................	26	1	7.00	0.00	3.00	0.00	4.00
...............GT-TGGGGG--ACATTGATCTCGGAGAC.......................................................................................................................	25	1	7.00	0.00	4.00	3.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAAA........................................................................................................................	24	1	6.00	0.00	6.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAC.........................................................................................................................	23	1	6.00	0.00	5.00	1.00	0.00
................G-TTGGGG--ACATTGATCTCGGAGA........................................................................................................................	23	1	6.00	0.00	2.00	0.00	4.00
..........................................................................................................................TCTCACATCACTT---CCCTCA..................	19	1	5.00	0.00	5.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCCCACAG...............	22	1	4.00	0.00	4.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTC.............................................................................................................................	19	1	4.00	0.00	4.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTCACGG...............	22	1	4.00	0.00	2.00	2.00	0.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGC..............	22	1	4.00	0.00	4.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTCGCAG...............	22	1	3.00	0.00	3.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCGG...........................................................................................................................	21	1	3.00	0.00	3.00	0.00	0.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGG..............	22	1	3.00	0.00	3.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAGA..............	23	1	3.00	0.00	3.00	0.00	0.00
...............GT-TGGGTG--ACATTGATCTCGGAGA........................................................................................................................	24	1	3.00	0.00	2.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTCGGAGAT.......................................................................................................................	25	1	2.00	0.00	2.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAGT........................................................................................................................	24	1	2.00	0.00	2.00	0.00	0.00
...............GT-TGGTGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	2.00	0.00	1.00	0.00	1.00
...............GT-TGGGGG--ACATTGATTTCGGAGA........................................................................................................................	24	1	2.00	0.00	0.00	0.00	2.00
..........................................................................................................................TCTCACATCACTC---CCCTCACAG...............	22	1	2.00	0.00	1.00	0.00	1.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAGT..............	23	1	2.00	0.00	2.00	0.00	0.00
..........................................................................................................................TCCCACATCACTT---CCCTCACAG...............	22	1	2.00	0.00	2.00	0.00	0.00
...............GT-TGGGGG--ACATTGGTCTCGGA..........................................................................................................................	22	1	1.00	0.00	0.00	1.00	0.00
...............CT-TGGGGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	1.00	0.00	0.00	0.00	1.00
..........................................................................................................................TCTCACATCACTT---CACTCACAG...............	22	1	1.00	0.00	1.00	0.00	0.00
...............GT-TGGGGG--ACATTGCTCTCGGAGA........................................................................................................................	24	1	1.00	0.00	0.00	0.00	1.00
...............GT-TGAGGG--ACATTGATCTCGGAGACG-------------.........................................................................................................	26	1	1.00	0.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTCGGTGA........................................................................................................................	24	1	1.00	1.00	0.00	0.00	0.00
..........................................................................................................................TCCCACATCACTT---CCCTCTCAG...............	22	1	1.00	1.00	0.00	0.00	0.00
..........................................................................................................................TCTCACTTCACTT---CCCTCACAG...............	22	1	1.00	0.00	1.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTAGGAGA........................................................................................................................	24	1	1.00	1.00	0.00	0.00	0.00
................G-TTGGGG--ACATTGATCTCGGAG.........................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
..........................................................................................................................TCTCACATTACTT---CCCTCACAG...............	22	1	1.00	0.00	1.00	0.00	0.00
..........................................................................................................................TCTCACACCACTT---CCCTCACAC...............	22	1	1.00	0.00	1.00	0.00	0.00
...........................................................................................CT--------------------GATCCATTxTCTCACACC...............................	19	1	1.00	0.00	0.00	0.00	1.00
...............GT-TGGGGT--ACATTGATCTCGGG..........................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
................T-TGGGGG--ACATTGATCTCGGAGA........................................................................................................................	23	1	1.00	0.00	1.00	0.00	0.00
...............GT-TGTTGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAGAAA-------------.........................................................................................................	26	1	1.00	0.00	1.00	0.00	0.00
................G-TTGGGG--ACATTGATCTCGGAGACG-------------.........................................................................................................	25	1	1.00	0.00	1.00	0.00	0.00
............................................................................................................................TCACATAACTT---CCCTCACAGT..............	21	1	1.00	0.00	1.00	0.00	0.00
................G-TTGGGG--ACATTGATCTCGG...........................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
...............GT-TGGGCG--ACATTGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	1.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTGACAG...............	22	1	1.00	0.00	0.00	0.00	1.00
...............GT-TGTGGG--ACATTGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	1.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAGAA.............	24	1	1.00	0.00	1.00	0.00	0.00
..........................................................................................................................TCTCACACCACTT---CCCTCACAG...............	22	1	1.00	0.00	0.00	0.00	1.00
.....................GGG--ACATTGATCTCGGAGG........................................................................................................................	19	1	1.00	0.00	1.00	0.00	0.00
...............GT-TCGGGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	1.00	0.00	0.00	0.00	1.00
..........................................................................................................................GCTCACATCACTT---CCCTCACAG...............	22	1	1.00	0.00	1.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAAT........................................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTCACTG...............	22	1	1.00	0.00	1.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCTTCACAG...............	22	1	1.00	0.00	1.00	0.00	0.00
..........................................................................................................................TATCACATCACTT---CCCTCACAG...............	22	1	1.00	1.00	0.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGC..........................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
...............GC-TGGGGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	1.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGGTCTCGGAG.........................................................................................................................	23	1	1.00	0.00	1.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CACTCAC.................	20	1	1.00	0.00	1.00	0.00	0.00
................T-TGGGGG--ACATTGATCTCGGAG.........................................................................................................................	22	1	1.00	0.00	0.00	1.00	0.00
..........................................................................................................................TCTCACATCACTT---CGCTCACAG...............	22	1	1.00	0.00	1.00	0.00	0.00
..........................................................................................................................TCTCACGTCACTT---CCCTCACAG...............	22	1	1.00	0.00	1.00	0.00	0.00
...............GT-TGGGGG--CCATTGATCTCGGAGA........................................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
............................................................................................................................TCACATCACTT---CCCTCACAGT..............	21	1	1.00	0.00	1.00	0.00	0.00
...............GT-TGGGGT--ACATTGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00

droSec1

GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCTGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCGCGGTGCTTGTA	Size	Hit Count	Total Norm	V113 Male body	V114 Embryo	V115 Head
...............GT-TGGGGG--ACATTGATCTCTGAG.........................................................................................................................	23	1	120.00	10.00	36.00	74.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAG...............	22	1	84.00	2.00	16.00	66.00
...............GT-TGGGGG--ACATTGATCTCTGAGA........................................................................................................................	24	1	53.00	1.00	25.00	27.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGT..............	22	1	23.00	0.00	12.00	11.00
..........................................................................................................................TCTCACATCACTT---CCCTCACA................	21	1	19.00	0.00	1.00	18.00
............................................................................................................................TCACATCACTT---CCCTCACAGT..............	21	1	18.00	0.00	2.00	16.00
...............GT-TGGGGG--ACATTGATCTCTGA..........................................................................................................................	22	1	7.00	0.00	2.00	5.00
...............GT-TGGGGG--ACATTGATCTCTG...........................................................................................................................	21	1	4.00	0.00	0.00	4.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAGT..............	23	1	4.00	0.00	0.00	4.00
...............GT-TGGGGG--ACATTGATCTCTGAGACG-------------.........................................................................................................	26	1	4.00	0.00	3.00	1.00
.............AGGT-TGGGGG--AxATTGATG...............................................................................................................................	18	1	3.00	1.00	0.00	2.00
...............GT-TGGGGG--ACATTGATCTCT............................................................................................................................	20	1	2.00	0.00	0.00	2.00
..........................................................................................................................TCTCACATCACTT---CCCTCAC.................	20	1	2.00	0.00	0.00	2.00
...............GT-TGGGGG--ACATTGATCTCTGAGAA.......................................................................................................................	25	1	2.00	0.00	0.00	2.00
.............AGGT-TGGGGG--xCATTGATG...............................................................................................................................	18	1	1.00	1.00	0.00	0.00
...............GT-TGGTGG--ACATTGATCTCTGAG.........................................................................................................................	23	1	1.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTCTTAGA........................................................................................................................	24	1	1.00	0.00	1.00	0.00
..........................................................................................................................TCTCACATCACTC---CCCTCACA................	21	1	1.00	0.00	0.00	1.00
..........................................................................................................................TCTCAAATCACTT---CCCTCACAG...............	22	1	1.00	0.00	1.00	0.00
.........................................ACG-------------G-------------------------CGGTTTAACT--------------------GACCCCTTCT.......................................	24	1	1.00	0.00	0.00	1.00
............................................................................................................................TCACATCACTT---TCCTCACAGT..............	21	1	1.00	0.00	1.00	0.00
................T-TGGGGG--ACATTGATCTCTGAGA........................................................................................................................	23	1	1.00	1.00	0.00	0.00
...............GT-TGGGGG--CCATTGATCTCTGAG.........................................................................................................................	23	1	1.00	0.00	0.00	1.00
..............................................................................................................................ACATCACTT---CCCTCACAGT..............	19	1	1.00	0.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CCCTTACAGT..............	22	1	1.00	0.00	0.00	1.00
..........................................................................................................................TCTCACATCACTT---CCCCCACAG...............	22	1	1.00	0.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CCCTCACA................	20	1	1.00	0.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CCCTCGCAGT..............	22	1	1.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGACCTCTG...........................................................................................................................	21	1	1.00	0.00	1.00	0.00
............................................................................................................................TCTCATCACTT---CCCTCACA................	19	1	1.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGTTCTCTGAG.........................................................................................................................	23	1	1.00	0.00	0.00	1.00
.........................................ACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCT.......................................	24	1	1.00	0.00	0.00	1.00
..........................................................................................................................TCTCACATCACTT---CCCTCAAAG...............	22	1	1.00	0.00	0.00	1.00
...........................................................................................................................CTCACGTCACTT---CCCTCACAGT..............	22	1	1.00	0.00	1.00	0.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGA..............	22	1	1.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTCTAAG.........................................................................................................................	23	1	1.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTC.............................................................................................................................	19	1	1.00	0.00	0.00	1.00
.............................................................................................................................CACATCACTT---CCCTCACAG...............	19	1	1.00	0.00	0.00	1.00
............................................................................................................................TCAAATCACTT---CCCTCACAGT..............	21	1	1.00	0.00	0.00	1.00
..........................................................................................................................ACTCACATCACTT---CCCTCACAG...............	22	1	1.00	0.00	0.00	1.00
...............GT-TGGGGG--ACCTTGATCTCTGAG.........................................................................................................................	23	1	1.00	0.00	1.00	0.00
...............GT-CGGGGG--ACATTGATCTCTGAGA........................................................................................................................	24	1	1.00	0.00	1.00	0.00
..........................................................................................................................TCTCACATCACTC---CCCTCACAG...............	22	1	1.00	1.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCCCTGAG.........................................................................................................................	23	1	1.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATCGATCTCTGAGA........................................................................................................................	24	1	1.00	0.00	1.00	0.00
...............GT-TCGGGG--ACATTGATCTCTGAG.........................................................................................................................	23	1	1.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTCTGAGATT-------------.........................................................................................................	26	1	1.00	0.00	0.00	1.00
............................................................................................................................TCACATCACTT---CCCTCACAGA..............	21	1	1.00	1.00	0.00	0.00
..........................................................................................................................TCCCACATCACTT---CCCTCACAG...............	22	1	1.00	0.00	0.00	1.00
......................GG--ACATTGATCTCTGAGACG-------------G-------------------------C..............................................................................	22	1	1.00	1.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCTGAGAC.......................................................................................................................	25	1	1.00	0.00	0.00	1.00
...............GT-TGGGGG--ACACTGATCTCTGAG.........................................................................................................................	23	1	1.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGATCTCTGAGC........................................................................................................................	24	1	1.00	0.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGC..............	22	1	1.00	0.00	0.00	1.00

droYak2

GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCGCGATGTTTGTA	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
..........................................................................................................................TCTCACATCACTT---CCCTCACAG...............	22	1	454.00	36.00	26.00	3.00	37.00	352.00
...............GT-TGGGGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	373.00	11.00	8.00	8.00	15.00	331.00
...............GT-TGGGGG--ACATTGATCTCGGAG.........................................................................................................................	23	1	98.00	0.00	24.00	10.00	38.00	26.00
..........................................................................................................................TCTCACATCACTT---CCCTCACA................	21	1	56.00	0.00	11.00	1.00	6.00	38.00
...............GT-TGGGGG--ACATTGATCTCGGAGG........................................................................................................................	24	1	35.00	0.00	0.00	0.00	0.00	35.00
...............GT-TGGGGG--ACATTGATCTCGGA..........................................................................................................................	22	1	25.00	1.00	3.00	5.00	8.00	8.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGT..............	22	1	25.00	2.00	8.00	1.00	12.00	2.00
...............GT-TGGGGG--ACATTGATCTCGGAGAA.......................................................................................................................	25	1	16.00	1.00	1.00	0.00	0.00	14.00
..........................................................................................................................TCTCACATCACTT---CCCTCAC.................	20	1	14.00	0.00	3.00	0.00	3.00	8.00
...............GT-TGGGGG--ACATTGATCTCGGAGC........................................................................................................................	24	1	10.00	0.00	0.00	0.00	1.00	9.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAC...............	22	1	7.00	0.00	0.00	0.00	0.00	7.00
...............GT-TGGGGG--ACATTGATCTCGGAGACG-------------.........................................................................................................	26	1	7.00	0.00	0.00	0.00	1.00	6.00
..........................................................................................................................TCTCACATCACTT---CCCTCCCAG...............	22	1	5.00	0.00	0.00	0.00	2.00	3.00
...............GT-TGGGGG--CCATTGATCTCGGAGA........................................................................................................................	24	1	5.00	0.00	0.00	0.00	0.00	5.00
..........................................................................................................................TCTCACATCACTT---CCCTCACCG...............	22	1	4.00	0.00	1.00	0.00	2.00	1.00
...............GT-TGGGGG--ACATTGATCTCGGCG.........................................................................................................................	23	1	4.00	0.00	0.00	1.00	3.00	0.00
............................................................................................................................TCACATCACTT---CCCTCACAGT..............	21	1	4.00	0.00	2.00	0.00	2.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAGAC.......................................................................................................................	25	1	3.00	1.00	0.00	0.00	0.00	2.00
..........................................................................................................................TCTCACATCACTT---CCCTCA..................	19	1	3.00	0.00	0.00	0.00	0.00	3.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAGT..............	23	1	3.00	1.00	1.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTCTGAG.........................................................................................................................	23	1	2.00	0.00	0.00	0.00	2.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAAA........................................................................................................................	24	1	2.00	0.00	1.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTCGG...........................................................................................................................	21	1	2.00	0.00	2.00	0.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGCGA........................................................................................................................	24	1	2.00	0.00	1.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGG..........................................................................................................................	22	1	2.00	0.00	0.00	0.00	0.00	2.00
..........................................................................................................................TCTCACATCACTT---CCCCCACAG...............	22	1	2.00	0.00	1.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTC.............................................................................................................................	19	1	2.00	0.00	0.00	0.00	0.00	2.00
...............GT-TGGGGG--ACATTGATCTCGGTG.........................................................................................................................	23	1	2.00	0.00	0.00	0.00	2.00	0.00
..........................................................................................................................TCTCACATCAGTT---CCCTCACAC...............	22	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TGGGGA--ACATTGATCTCGGA..........................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCT..............................................................................................................................	18	1	1.00	0.00	1.00	0.00	0.00	0.00
............................................................................................................................TCACATCACTT---CCCTCACAG...............	20	1	1.00	0.00	1.00	0.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAA...............	22	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TGGGGG--GCATTGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
...........................................................................................................................CTGACATCACTG---CCCTCACAGT..............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAGT........................................................................................................................	24	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TAGGGG--ACATTGATCCCGGAGA........................................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00	0.00
...............GT-CGGGGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	1.00	0.00	0.00	0.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGG..............	22	1	1.00	0.00	0.00	0.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CCCTCACA................	20	1	1.00	0.00	0.00	0.00	0.00	1.00
................T-TGGGGG--ACATTGATCTCGGAGG........................................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
..............CGT-TGGGGG--ACATTGATCTCGGAG.........................................................................................................................	24	1	1.00	0.00	0.00	0.00	1.00	0.00
.....................GGG--ACATTGATCTCGGAG.........................................................................................................................	18	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTCGGAT.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAGA..............	23	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGGG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGACA........................................................................................................................	24	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--TCATTGATCTCGGAGG........................................................................................................................	24	1	1.00	0.00	0.00	0.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CCCTCCCAGT..............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
..........................................................................................................................TCTCACATCACTT---ACCTCACAG...............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
..........................................................................................................................TCTCACATCACTC---CCCTCACAG...............	22	1	1.00	0.00	0.00	0.00	0.00	1.00
..........................................................................................................................GCTCACATCACTT---CCCTCACAG...............	22	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TCGGGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	1.00	0.00	0.00	0.00	0.00	1.00
..........................................................................................................................TCTCACATCACTA---CCCTCACAG...............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGAGGG--ACATCGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
...........................................................................................................................CTCACATCACTT---CCCTCACAAT..............	22	1	1.00	1.00	0.00	0.00	0.00	0.00
...........................................................................................................................CTCACATCACTT---CCCTCACAG...............	21	1	1.00	0.00	0.00	0.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CCCTCACATT..............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
...........................................................................................................................CTCACATCACTT---CCCTCACCGT..............	22	1	1.00	0.00	1.00	0.00	0.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTCACGG...............	22	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TGGGGG--ACATTGATCTGGGTG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGA--ACATTGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TAGGGG--ACATTGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	1.00	0.00	0.00	0.00
...........................................................................................................................CTCACATCACTT---CCCTAACTGT..............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATGGATCACGGAG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--ATATTGATCTCGGAGA........................................................................................................................	24	1	1.00	0.00	0.00	0.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CCCTCACCGG..............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
...........................................................................................................................CCCACATCACTT---CCCTCCCAGT..............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
..........................................................................................................................TCTTACGTCACTT---CCCTCACAG...............	22	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCGAAG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
..........................................................................................................................TCTCACATCACTT---CCCTCACC................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TGGAGG--ACATTGATCTCGCAGA........................................................................................................................	24	1	1.00	0.00	0.00	0.00	1.00	0.00
..........................................................................................................................TATCACATCACTT---CCCTCTCAG...............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
..........................................................................................................................CCTCACATCACTT---CCCTCACA................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
................................ATCTCGGAGxCG-------------G-------------------------TGGTT..........................................................................	17	1	1.00	0.00	0.00	0.00	1.00	0.00
...........................................................................................................................CTCACATCACTT---CCCCCACAGT..............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
..........................................................................................................................TCTTACATCACTT---CCCTCACAG...............	22	1	1.00	1.00	0.00	0.00	0.00	0.00
...............GA-TGGGGG--ACATTGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAGAAA-------------G-------------------------...............................................................................	27	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TGGGGG--AAATTGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGATCTCG............................................................................................................................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGATCTCAGA..........................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00	0.00
...............GT-TGGGGG--ACATTGATCTCGGAC.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
...........................................................................................................................CTCACATCACTT---CACTCACAGT..............	22	1	1.00	0.00	1.00	0.00	0.00	0.00
...............GT-TGGGTG--ACATTGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TGGGGG--ACGTTGATCTCGGAGC........................................................................................................................	24	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TGGGGT--ACATTGCTCTCGG...........................................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
....................GGGG--ACATTGATCTCGGAGA........................................................................................................................	20	1	1.00	0.00	0.00	0.00	0.00	1.00
...............GT-TGGGGG--CCATTGATCTCGGAG.........................................................................................................................	23	1	1.00	0.00	0.00	0.00	1.00	0.00
..........................................................................................................................TCTCACCTCTCTT---CCCTCACAG...............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
...........................................................................................................................ATCACATCACTT---CCCTCACAGT..............	22	1	1.00	0.00	1.00	0.00	0.00	0.00
..........................................................................................................................TATCGCATCACTT---CCCTCACAG...............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GT-TGGGGG--ACATTGCTCTCGG...........................................................................................................................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
................G-TTGGGG--ACATTGATCTCGGAGA........................................................................................................................	23	1	1.00	0.00	0.00	0.00	0.00	1.00
..........................................................................................................................TCTCACATCACTT---CCCCCACA................	21	1	1.00	0.00	0.00	0.00	0.00	1.00
............................................................................................................................TCACATCACTT---CCCTCACA................	19	1	1.00	0.00	1.00	0.00	0.00	0.00

droEre2

GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCAATCTCTCACATCACTT---CCCTCACAGTGCGCGGTGCTTGTA	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
..........................................................................................................................TCTCACATCACTT---CCCTCACAG...............	22	1	506.00	35.00	66.00	0.00	405.00
...............GT-TGGGGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	248.00	14.00	13.00	0.00	221.00
...............GT-TGGGGG--ACATTGATCTCGGAG.........................................................................................................................	23	1	146.00	2.00	17.00	0.00	127.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGT..............	22	1	82.00	1.00	10.00	0.00	71.00
..........................................................................................................................TCTCACATCACTT---CCCTCACA................	21	1	76.00	1.00	13.00	0.00	62.00
...............GT-TGGGGG--ACATTGATCTCGG...........................................................................................................................	21	1	20.00	0.00	2.00	0.00	18.00
...............GT-TGGGGG--ACATTGATCTCGGA..........................................................................................................................	22	1	19.00	0.00	1.00	0.00	18.00
..........................................................................................................................TCTCACATCACTT---CCATCACAG...............	22	1	11.00	0.00	0.00	0.00	11.00
..........................................................................................................................TCTCACATCACTT---CCCTCAC.................	20	1	7.00	0.00	0.00	0.00	7.00
...............GT-TGTGGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	7.00	0.00	0.00	0.00	7.00
..........................................................................................................................TCTCACATCACTT---CCCTCACAGT..............	23	1	6.00	0.00	0.00	0.00	6.00
...............GT-TGGGGG--ACATTGATCTCTGAGA........................................................................................................................	24	1	5.00	0.00	0.00	0.00	5.00
............................................................................................................................TCACATCACTT---CCCTCACAGT..............	21	1	5.00	0.00	1.00	0.00	4.00
...............GT-TTGGGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	5.00	0.00	0.00	0.00	5.00
...............GT-TGGGGG--ACATTGATCTCGGAGACG-------------.........................................................................................................	26	1	5.00	0.00	0.00	0.00	5.00
...........................................................................................................................CTCACATCACTT---CCCTCACAGA..............	22	1	5.00	0.00	0.00	0.00	5.00
...............GT-TTGGGG--ACATTGATCTCGGAG.........................................................................................................................	23	1	5.00	0.00	0.00	0.00	5.00
............................................................................................................................TCACATCACTT---CCCTCACAG...............	20	1	4.00	1.00	1.00	0.00	2.00
...........................................................................................................................CTCACATCACTT---CCCTCACAG...............	21	1	4.00	0.00	0.00	0.00	4.00
..........................................................................................................................TATCACATCACTT---CCCTCACAG...............	22	1	4.00	0.00	0.00	0.00	4.00
...............GT-TGGGGG--ACATTGATCTCGGAA.........................................................................................................................	23	1	4.00	0.00	1.00	0.00	3.00
..........................................................................................................................TCTCACATCACTT---CACTCACAG...............	22	1	4.00	0.00	0.00	0.00	4.00
..........................................................................................................................TCTCACATCACTT---CCCTAACAG...............	22	1	4.00	0.00	0.00	0.00	4.00
..........................................................................................................................TCTCGCATCACTT---CCCTCACAG...............	22	1	4.00	1.00	0.00	0.00	3.00
...............GT-TGGGGG--ACATTGATCTCGGATA........................................................................................................................	24	1	4.00	0.00	0.00	0.00	4.00
...............GT-TGGTGG--ACATTGATCTCGGAGA........................................................................................................................	24	1	3.00	0.00	0.00	0.00	3.00
...............GT-TGGGGG--ACATTGATCTCGGAT.........................................................................................................................	23	1	3.00	0.00	0.00	0.00	3.00
...............GT-TGGGGG--ACATTGATCTCGGACA........................................................................................................................	24	1	3.00	0.00	0.00	0.00	3.00
..........................................................................................................................TCTCACATCACTT---CCCTCACCG...............	22	1	3.00	2.00	1.00	0.00	0.00
..........................................................................................................................TCTCACATAACTT---CCCTCACAG...............	22	1	3.00	0.00	0.00	0.00	3.00
...............GT-TGGTGG--ACATTGATCTCGGAG.........................................................................................................................	23	1	3.00	0.00	0.00	0.00	3.00
..........................................................................................................................TCTCACATCACTT---CCCTCA..................	19	1	3.00	0.00	0.00	0.00	3.00
...............GT-TGTGGG--ACATTGATCTCGGAG.........................................................................................................................	23	1	3.00	0.00	0.00	0.00	3.00
...............GT-TGGGGG--ACATTGATCTCGGAGC........................................................................................................................	24	1	3.00	0.00	1.00	0.00	2.00

droAna3

GTGGCTGGACAAGAGGT-GAGATAACACGTT-----CTAACCAACTGATATGAAACTA------CGAATGTTTTTATCGCTGTCGATTCGAAC--------------------GA-----TCTCTCATATAACCGTACCTATTACAGTGCGCGGTGTCTGTA	Size	Hit Count	Total Norm	V105 Male body	V106 Head	V055 Unknown	V039 Embryo
..............................................................................GCTGTCGATTCGAAC--------------------GA-----TC........................................	19	1	6.00	1.00	4.00	1.00	0.00
...........................................................................ATCGCTGTCGATTCGAAC--------------------GA-----TC........................................	22	1	3.00	0.00	3.00	0.00	0.00
.....................................................................GTTTTTATCGCTGTCGATTCGA.......................................................................	22	1	3.00	0.00	3.00	0.00	0.00
...........................CGTT-----CTAACCAACTGATATGAAACT.........................................................................................................	25	1	2.00	0.00	2.00	0.00	0.00
..........................................AACTGATATGAAACTA------CGAAT.............................................................................................	21	1	1.00	0.00	1.00	0.00	0.00
.........................................................................TTATCGCTGTCGATTCGAAC--------------------GA-----TC........................................	24	1	1.00	1.00	0.00	0.00	0.00
.............................................TGATATGAAACTA------CGAATGT...........................................................................................	20	1	1.00	1.00	0.00	0.00	0.00
..............................................................................GCTGTCGATTCGAAC--------------------GA-----TCT.......................................	20	1	1.00	1.00	0.00	0.00	0.00
GTGGCTGGTCAAGAAGT-G...............................................................................................................................................	18	1	1.00	0.00	1.00	0.00	0.00
..............................................GATATGAAACTA------CGAATGTTTT........................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
.....................................................AACTA------CGAATGTTTTTATCGC..................................................................................	21	1	1.00	0.00	1.00	0.00	0.00

dp4

GTGGCTGGACAAGAGGTGTGTGGG--ATACTGATTTTAGAGAAAAAAAAA----------A----------------------CCAT-T--AACGTGAGG--------------CTTCG-TTTCTCACATCATTT-TCCCCTCACAGTGCCCGGTGCCTGTA	Size	Hit Count	Total Norm	V112 Male body	V043 Embryo	V051 Head	M022 Male body
............................................................................................................................TCACATCATTT-TCCCCTCACAGT..............	23	1	42.00	4.00	2.00	36.00	0.00
............................................................................................................................TCACATCATTT-TCCCCTCACAG...............	22	1	17.00	1.00	2.00	14.00	0.00
...............GTGTGTGGG--ATACTGATTTTAGAGA........................................................................................................................	25	1	3.00	2.00	1.00	0.00	0.00
............................................................................................................................TCACATCATTT-TCCCCTCACA................	21	1	2.00	0.00	0.00	2.00	0.00
..............................................................................................................................ACATCATTT-TCCCCTCACAGT..............	21	1	2.00	0.00	0.00	2.00	0.00
............................................................................................................................TCACATCAxTT-TCCCCTCACAGT..............	22	1	1.00	1.00	0.00	0.00	0.00
...........AGTGGTGTTTGGG--ATACTG..................................................................................................................................	19	1	1.00	1.00	0.00	0.00	0.00
............................................................................................................................TCACATCATTT-TCCACTCACAGT..............	23	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACATCATTT-TCCCCTCACGG...............	22	1	1.00	0.00	1.00	0.00	0.00
.TGGCTTGATAAGAGGTGTGTGG...........................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
.............................................................................................................................CACATCATTT-TCCCCTCACAGT..............	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACATCATGT-TCCCCTCACA................	21	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACAACATTT-ACCCCTCACAGT..............	23	1	1.00	0.00	1.00	0.00	0.00
............................................................................................................................TCACATCATTT-TAACCTCACAGT..............	23	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACATCATTC-TCCCCTCACAGT..............	23	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACATCATTT-TCCCCTCACAA...............	22	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACATCATTT-TCCCCTCACAGA..............	23	1	1.00	0.00	0.00	1.00	0.00

droPer1

GTGGCTGGACAAGAGGTGTGTGGG--ATACTGATTTTAGAGAAAA------------ATAA----------------------CCAT-T--AACGTGAGG--------------CTTCG-TTTCTCACATCATTT-TCCCCTCACAGTGCCCGGTGCCTGTA	Size	Hit Count	Total Norm	V111 Male body	V042 Embryo	V050 Head	V057 Head	M021 Embryo
............................................................................................................................TCACATCATTT-TCCCCTCACAGT..............	23	1	45.00	1.00	0.00	18.00	25.00	1.00
............................................................................................................................TCACATCATTT-TCCCCTCACAG...............	22	1	20.00	0.00	3.00	8.00	9.00	0.00
...............GTGTGTGGG--ATACTGATTTTAGAGA........................................................................................................................	25	1	11.00	6.00	0.00	1.00	2.00	2.00
............................................................................................................................TCACATCATTT-TCCCCTCACA................	21	1	10.00	0.00	0.00	4.00	6.00	0.00
.............................................................................................................................CACATCATTT-TCCCCTCACAGT..............	22	1	3.00	0.00	0.00	3.00	0.00	0.00
............................................................................................................................TCACATCATTT-TCCCCTCAAAG...............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACACCATTT-TCCCCTCACAGT..............	23	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................................................TAACATCATCT-TCCCCTCACAGT..............	23	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACATCATTT-TCCCCTCACAGC..............	23	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................................................................................................CACATCATTT-TCACCTCACAGT..............	22	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GTGTGTGGG--ATACGGATTTTAGAGA........................................................................................................................	25	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACATCATTT-TCCCCTCGCT................	21	1	1.00	0.00	0.00	0.00	1.00	0.00
...............GTGAGTGGG--ATACTGATTTTAGAGA........................................................................................................................	25	1	1.00	0.00	0.00	0.00	0.00	1.00
.............................................................................................................................CACATCATTT-TCCCCTCACAG...............	21	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................................................TCACATCATTT-GCCCCTCACAGT..............	23	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................................................................................................CACATCATTT-TCCCCTCACA................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
.............................................................................................................................CACATCATTT-CCCCCTCACA................	20	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACATCATTT-TCCGCTCACCGT..............	23	1	1.00	0.00	0.00	0.00	1.00	0.00
............................................................................................................................TCACATCATTT-TCACCTCACAG...............	22	1	1.00	0.00	0.00	1.00	0.00	0.00
............................................................................................................................TCACATCATTT-TCCCCTCAGAGT..............	23	1	1.00	0.00	0.00	1.00	0.00	0.00
...............GTGTGTGGG--ATACTGATTTTAGAGAA.......................................................................................................................	26	1	1.00	0.00	0.00	0.00	1.00	0.00

droWil1

ATGGTTGGATAAAAGGT--GGGGT--ACAACAACAACAAAAAT--------------A-------------------------CGAATATAATGGT-AAACTCTC-------TCTCTCAT---CTCTTATCATTT-TCTCCTCACAGTGCGCGTTCACTTTA	Size	Hit Count	Total Norm	V117 Male body	V118 Embryo	V119 Head	M020 Head
.......................A--ACAACAACAACAAAAGT--------------.........................................................................................................	18	4	0.50	0.00	0.50	0.00	0.00
......................GT--ACAACAACAATAAGAA........................................................................................................................	18	1	2.00	0.00	2.00	0.00	0.00
......................AT--ACAAGAACAACAAAAA........................................................................................................................	18	1	1.00	0.00	1.00	0.00	0.00
............................AACAACAACAACAAC--------------A-------------------------CGA............................................................................	19	2	0.50	0.00	0.50	0.00	0.00
.............................ACAACAACAACAAC--------------A-------------------------CGAAT..........................................................................	20	1	1.00	0.00	1.00	0.00	0.00
.............................ACAACAACAAAAAT--------------A-------------------------CCAAC..........................................................................	20	1	1.00	0.00	1.00	0.00	0.00
......................GT--ACAACAACAACAAGAAG--------------A-------------------------...............................................................................	20	1	1.00	0.00	0.00	0.00	1.00
....................GGGT--AGAACAAAAACAAAA.........................................................................................................................	19	1	1.00	0.00	1.00	0.00	0.00
............................AACAACAACGAAAAT--------------A-------------------------CGT............................................................................	19	1	1.00	1.00	0.00	0.00	0.00
..........................ACAACAACAACAAAATA--------------A-------------------------CGA............................................................................	21	1	1.00	1.00	0.00	0.00	0.00

droVir3

GTGGCTGGACAAAAGGT-TGGGGC--ACATTGATCTTCAAGAAACTCACAGCCA---G-------------------------CTCATT------------------------TACTCACTCTCTCTC-TCTTCT-CTCCCTCACAGTGCCCGCTGTCTGTA	Size	Hit Count	Total Norm	V116 Male body	V053 Unknown	V047 Embryo	M027 Male body	M028 Head
....................................................................................................................TCAGTCTCTCTC-TCTCCT-..........................	18	1	5.00	0.00	0.00	0.00	0.00	5.00
...........................CATTGAACTTCAAGAACC.....................................................................................................................	18	1	1.00	0.00	0.00	0.00	1.00	0.00

droMoj3

GTGGCTGGACAAGAGGT-AATTGATCACTCctatctctgtct-----------------------------------------ctctttctct--------------------ttctgactctctccca-ctctt---tATTTGTAGTGCTCGCTGCCTGTA	Size	Hit Count	Total Norm	V110 Male body	V056 Unknown	V049 Head	V041 Embryo
.....................TGATTACTxCTATCTCTGTCT-----------------------------------------CTC............................................................................	23	1	1.00	0.00	0.00	1.00	0.00

droGri2

GTGGCTGGACAAAAGGT-AGGAGAGCACATTGATCTTGAAGAAACTTGCAGAAA---A--CTCTCTAATACTCTCAC---------TCCATTT------------CTCTAACTCTCCCTCTCTCTTATTTAACTT---C-ATTTTAGTGCGCGCTGTTTATA

Size

Hit Count

Total Norm

V109
Male body

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