dme-mir-1002- Best orthologs

dme-mir-1002	chr2L:13747609-13747697 -	Known_mirbase
[View on miRBase]	[View on UCSC Genome Browser {Cornell Mirror}]	antisense_to_intron

Legend:

   mature strand at position 13747660-13747683
   star strand at position 13747621-13747642
   mutations
   read mismatches

Notes: Looks lost in virilis and mojavensis. Grimshawi has reads.

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

Visually pleasing best hits from LASTZ and MAF

Species	Coordinate	Source	Confidence	Alignment
dm3	chr2L:13747594-13747712 -		1	TGTATCG---GAA-----------TTA----ATTAGAAAT-----------------------TATATATTTAAGTAGTG-----------GATACAAAGGGCGATTTGATATA--A-AAGT-GT-----CGCATTGTATGACCTACTTAACTAGCTGATTTTGTATCCCAAC---ATAATAG---------------------
droSim1	chr2L:13506512-13506649 -	LASTZ	1	TGTCGGAAT----------------------AAATATAATAATAATCGGAAATATTTAGAAATTATATATTTAAGTAGTG-----------GATACAAAAGGCGATTTGATATA--A-AAGT-AT-----CGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATTCCAAC---ATAAAAT---------------------
droSec1	super_3:14439-14576 -	LASTZ	1	TGTCGGAAT----------------------AAATATAATAATAATCGGAAATATTTAGAAATTATATATTTAAGTAGTG-----------GATACAAAAGGCGATTTGATATA--A-AAGT-AT-----CGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATTCCAAC---ATAAAAT---------------------
droYak2	chr2L:10159916-10160031 -	LASTZ	1	TATGCTT---CGA---------AGTTT----TAAAAAAAT-----------------------TATATATTTAAGTAGTG-----------GATACAAAAGGCGATTGA-TATA--A-AAAT-GT-----CGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATCCCAAC---TT----A---------------------
droEre2	scaffold_4929:11719022-11719139 +	LASTZ	1	TCTATAT---TAAT-----------T-----GATCAAAAT-----------------------TATATATCTAAGTAGTG-----------GATACAAACGGCGATTTGGTATA--A-AAAT-GT-----CGCATTGTATGACCTGCTTAACTAGCTGATTTTGTATCCCAAC---GTACAAA---------------------
droEug1	scf7180000409452:319606-319729 -	LASTZ	4	TATATAC---AAAT-----------TAATTTTACAAAAAT-----------------------CATATACTTAAGTAGTG-----------GATACAAATTGCGATTTTAA--A--A-TATA-CT-----CGCATTGTATGGCCTACTTAGTTAGTTGATTTTTAACACCGTCAAGATAAAAG---------------------
droBia1	scf7180000302408:2583564-2583692 +	LASTZ	4	TTTAAAA--TA-TTT-------AGAAT----TTAGAAAAT-----------------------CATTTGTTTAAGTAGTG-----------CATACAAAAGGCGATTTGCTATC--A-AACG-TT-----CGCATTGTATGCCCTACTTAACTAGTTGGTTTTTCTAAGCAAC---ATTAAAATTATTG---------------
droTak1	scf7180000414072:20324-20464 +	LASTZ	4	TGTTTTT---GAA-----------ATT----TCAAAAAAT-----------------------CATACATTTAAGTAGTG-----------GATACAAAAGGCGATTTGCTAAT--AAAATG-TT-----CGCATTGTATGGCCTACTTAACTAACTGATTTTTTTTAACAAC---ATTAAAATAACTGCTGAATACAAAAGAT
droEle1	scf7180000491338:1356996-1357111 -	LASTZ	4	TATGTTT---T-------------GTT----TAAAAAAAT-----------------------CATGTATTTAAGTAGTG-----------GATACAAAAGGCGATTTACAAAA--TAAATG-TT-----CGCATTGTATGCCCTACTTAACTAGCAGGTTTTTCCAAGCAAC---AAC--AA---------------------
droRho1	scf7180000780107:332628-332745 +	LASTZ	4	GTTATA--------------------------AAAAAAAT-----------------------CATATGTTTAAGTAGTG-----------GATACAAATGGCGACTTGCAAACG-A-AATG-TT-----CGCATTGTATGTCCTACTTAAGTAGCTGATTTTTCCAAGCGTC---ATTAAAGTAATTG---------------
droFic1	scf7180000448796:312-430 +	LASTZ	4	TATATTT---TTA---------ACATA----TTAAAAAAT-----------------------TATACGTTTAAGTAGTG-----------GATACAAAAGGCGATTTGTATAA--CGAAAG-TT-----CGCATTGTATGTCCTACTTAAGTGGCTGATTTTTTCAAGCAAC---ATC---A---------------------
droKik1	scf7180000302236:232151-232252 +	LASTZ	4	CATATCT---GTT-----------AAT----TAAGAAAAT-----------------------CGTATGTTTAAGTAGTG-----------GATACAA-CGGCGATTGAACACA--ATAATC-TT-----CGCAGTGTGTTACCTACTTAATTAGTCGATTTT-----------------------------------------
droAna3	scaffold_12943:1815398-1815512 -	LASTZ	1	TCATAAA--TA-TCT--------GTGC----AAACTAAAT-----------------------CATGTGTTTAAGTAGGC-----------AATACAT-GGGCGACTAAATAAA--A-TATA-CT-----CGCAATGTATAGCCTACATAACTAGTTGATTTTTGCAAGCATC---------C---------------------
droBip1	scf7180000396728:1424338-1424445 +	LASTZ	4	CTTCTTA---ATA-----------TAC----AACTTAAAT-----------------------CATGTGTTTAAGTAGGC-----------AATACAT-GGGCGATTCATTA--------CA-TT-----CGCAATGTATGGCTTACATAACTAGTTGATTTTTGAAGTCATC--------CA---------------------
dp4	chr4_group1:1722923-1723028 +	LASTZ	1	CCTCTC--------------------------AAAATAAT-----------------------CGGGCACCTAAGTAGTT-----------GATACAA-GGGCGATAATGTAAA--AGAACT-TT-----CGCATTGTGTGACCTACTTAAATGCTCGATTGTTTCAAGCAAC---CT--------------------------
droPer1	super_5:3483460-3483570 -	LASTZ	1	CCTCTC--------------------------AAAATAAT-----------------------CGGGCACCTAAGTAGTT-----------GATACAA-GGGCGATAATGTAAA--AGAACT-TT-----CGCATTGTGTGACCTACTTAAATGCCCGATTGTTTCAAGCAAC---CTCTAAA---------------------
droWil1	scaffold_180772:545437-545562 +	LASTZ	1	TCATTTG---A-TCT-------GGTCA----TTGAAAAAT-----------------------GTTACACTTAAGTAGTT-----------AATACAA-TGGCGATTCGTATTCCAT-TGTACAT-----CGCATTGTGTGAGTTACTTTGTTGAGAGATTTTTCCAAACAACAAGATAA-TC---------------------
droVir3	scaffold_12723:5043878-5043988 +	LASTZ	5	TGCCCAT---AAA-----------TGT----CTTGAAAAT-----------------------TTGTCATTTAAGTAGGT-----------CACACAA--TGCGATGCAAGAAA----AAA--CTC----GCCCTTGTATTAACTACTTAAGCGTTCAATTTTC-ATTGCAGC---A----AG---------------------
droMoj3	scaffold_6500:16663653-16663781 -	LASTZ	5	TGTATAA---A-------------GTT----AAGTAAAAT-----------------------AACAAACTTAAGTTGAATATTATACATATATATAAAATGCATCTCGTAAGC--CATATA-TATGTATATAAATATATATCATAT-----CTATTGTTATTGCTGATCGAC---TGATTGA---------------------
droGri2	scaffold_15126:8057211-8057331 -	LASTZ	1	TGTAAAT---A-TTTATAATCACTGT-----ATTGAAAAT-----------------------TTAACACTTAAGTAGTT-----------GATACAA-GGGCGAGTTTCA-T---A-AAGT-AT-----CGCATTGTGTGACCTACTTGAATGAGAGATTTTTA--AGATAC---TG--TAA---------------------

Legend

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

Re-alignment after removal of non-confident orthologs

Species	Alignment
dm3	TGTATCG---GAA-----------TTA----ATTAGAAAT-----------------------TATATATTTAAGTAGTG-----------GATACAAAGGGCGATTTGATATA--A-AAGT-GT-----CGCATTGTATGACCTACTTAACTAGCTGATTTTGTATCCCAAC---ATAATAG---------------------
droSim1	TGTCGGAAT----------------------AAATATAATAATAATCGGAAATATTTAGAAATTATATATTTAAGTAGTG-----------GATACAAAAGGCGATTTGATATA--A-AAGT-AT-----CGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATTCCAAC---ATAAAAT---------------------
droSec1	TGTCGGAAT----------------------AAATATAATAATAATCGGAAATATTTAGAAATTATATATTTAAGTAGTG-----------GATACAAAAGGCGATTTGATATA--A-AAGT-AT-----CGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATTCCAAC---ATAAAAT---------------------
droYak2	TATGCTT---CGA---------AGTTT----TAAAAAAAT-----------------------TATATATTTAAGTAGTG-----------GATACAAAAGGCGATTGA-TATA--A-AAAT-GT-----CGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATCCCAAC---TT----A---------------------
droEre2	TCTATAT---TAAT-----------T-----GATCAAAAT-----------------------TATATATCTAAGTAGTG-----------GATACAAACGGCGATTTGGTATA--A-AAAT-GT-----CGCATTGTATGACCTGCTTAACTAGCTGATTTTGTATCCCAAC---GTACAAA---------------------
droEug1	TATATAC---AAAT-----------TAATTTTACAAAAAT-----------------------CATATACTTAAGTAGTG-----------GATACAAATTGCGATTTTAA--A--A-TATA-CT-----CGCATTGTATGGCCTACTTAGTTAGTTGATTTTTAACACCGTCAAGATAAAAG---------------------
droBia1	TTTAAAA--TA-TTT-------AGAAT----TTAGAAAAT-----------------------CATTTGTTTAAGTAGTG-----------CATACAAAAGGCGATTTGCTATC--A-AACG-TT-----CGCATTGTATGCCCTACTTAACTAGTTGGTTTTTCTAAGCAAC---ATTAAAATTATTG---------------
droTak1	TGTTTTT---GAA-----------ATT----TCAAAAAAT-----------------------CATACATTTAAGTAGTG-----------GATACAAAAGGCGATTTGCTAAT--AAAATG-TT-----CGCATTGTATGGCCTACTTAACTAACTGATTTTTTTTAACAAC---ATTAAAATAACTGCTGAATACAAAAGAT
droEle1	TATGTTT---T-------------GTT----TAAAAAAAT-----------------------CATGTATTTAAGTAGTG-----------GATACAAAAGGCGATTTACAAAA--TAAATG-TT-----CGCATTGTATGCCCTACTTAACTAGCAGGTTTTTCCAAGCAAC---AAC--AA---------------------
droRho1	GTTATA--------------------------AAAAAAAT-----------------------CATATGTTTAAGTAGTG-----------GATACAAATGGCGACTTGCAAACG-A-AATG-TT-----CGCATTGTATGTCCTACTTAAGTAGCTGATTTTTCCAAGCGTC---ATTAAAGTAATTG---------------
droFic1	TATATTT---TTA---------ACATA----TTAAAAAAT-----------------------TATACGTTTAAGTAGTG-----------GATACAAAAGGCGATTTGTATAA--CGAAAG-TT-----CGCATTGTATGTCCTACTTAAGTGGCTGATTTTTTCAAGCAAC---ATC---A---------------------
droKik1	CATATCT---GTT-----------AAT----TAAGAAAAT-----------------------CGTATGTTTAAGTAGTG-----------GATACAA-CGGCGATTGAACACA--ATAATC-TT-----CGCAGTGTGTTACCTACTTAATTAGTCGATTTT-----------------------------------------
droAna3	TCATAAA--TA-TCT--------GTGC----AAACTAAAT-----------------------CATGTGTTTAAGTAGGC-----------AATACAT-GGGCGACTAAATAAA--A-TATA-CT-----CGCAATGTATAGCCTACATAACTAGTTGATTTTTGCAAGCATC---------C---------------------
droBip1	CTTCTTA---ATA-----------TAC----AACTTAAAT-----------------------CATGTGTTTAAGTAGGC-----------AATACAT-GGGCGATTCATTA--------CA-TT-----CGCAATGTATGGCTTACATAACTAGTTGATTTTTGAAGTCATC--------CA---------------------
dp4	CCTCTC--------------------------AAAATAAT-----------------------CGGGCACCTAAGTAGTT-----------GATACAA-GGGCGATAATGTAAA--AGAACT-TT-----CGCATTGTGTGACCTACTTAAATGCTCGATTGTTTCAAGCAAC---CT--------------------------
droPer1	CCTCTC--------------------------AAAATAAT-----------------------CGGGCACCTAAGTAGTT-----------GATACAA-GGGCGATAATGTAAA--AGAACT-TT-----CGCATTGTGTGACCTACTTAAATGCCCGATTGTTTCAAGCAAC---CTCTAAA---------------------
droWil1	TCATTTG---A-TCT-------GGTCA----TTGAAAAAT-----------------------GTTACACTTAAGTAGTT-----------AATACAA-TGGCGATTCGTATTCCAT-TGTACAT-----CGCATTGTGTGAGTTACTTTGTTGAGAGATTTTTCCAAACAACAAGATAA-TC---------------------
droVir3	TGCCCAT---AAA-----------TGT----CTTGAAAAT-----------------------TTGTCATTTAAGTAGGT-----------CACACAA--TGCGATGCAAGAAA----AAA--CTC----GCCCTTGTATTAACTACTTAAGCGTTCAATTTTC-ATTGCAGC---A----AG---------------------
droMoj3	TGTATAA---A-------------GTT----AAGTAAAAT-----------------------AACAAACTTAAGTTGAATATTATACATATATATAAAATGCATCTCGTAAGC--CATATA-TATGTATATAAATATATATCATAT-----CTATTGTTATTGCTGATCGAC---TGATTGA---------------------
droGri2	TGTAAAT---A-TTTATAATCACTGT-----ATTGAAAAT-----------------------TTAACACTTAAGTAGTT-----------GATACAA-GGGCGAGTTTCA-T---A-AAGT-AT-----CGCATTGTGTGACCTACTTGAATGAGAGATTTTTA--AGATAC---TG--TAA---------------------

20-way Secondary Structure

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

Small RNA-seq read pileup

Species

Alignment

droSim1

TGTCGGAAT----------------------AAATATAATAATAATCGGAAATATTTAGAAATTATATATTTAAGTAGTG-----------GATACAAAAGGCGATTTGATATA--A-AAGT-AT-----CGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATTCCAAC---ATAAAAT---------------------	Size	Hit Count	Total Norm	V044 Embryo	M023 Head	M024 Male body	M025 Embryo
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	3421.00	3281.00	0.00	0.00	140.00
...................................................................................................................................GCATTGTATGGCCTACTTAACT...................................................	22	2	346.50	38.50	0.00	0.00	308.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCGA...................................................................................................	24	1	548.00	474.00	0.00	0.00	74.00
..................................................................................................................................CGCATTGTATGGCCTACTTAACT...................................................	23	2	153.50	5.00	0.50	0.00	148.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGG...................................................................................................	24	1	281.00	222.00	0.00	0.00	59.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCG....................................................................................................	23	1	271.00	236.00	0.00	0.00	35.00
..................................................................................................................................CGCATTGTATGGCCTACTTAAC....................................................	22	2	135.00	25.50	0.00	0.00	109.50
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGAT..................................................................................................	25	1	233.00	216.00	0.00	0.00	17.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGC...................................................................................................	24	1	129.00	126.00	0.00	0.00	3.00
......................................................................TTAAGTAGTG-----------GATACCAAAGGCGA...................................................................................................	24	1	109.00	109.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGAT..................................................................................................	24	1	95.00	95.00	0.00	0.00	0.00
....................................................................................................................................CATTGTATGGCCTACTTAACT...................................................	21	2	40.50	2.50	0.00	0.00	38.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCG....................................................................................................	23	1	71.00	58.00	0.00	0.00	13.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGC.....................................................................................................	22	1	63.00	57.00	0.00	0.00	6.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGGGA...................................................................................................	24	1	55.00	47.00	0.00	0.00	8.00
......................................................................TTAAGTAGTG-----------GATAAAAAAGGCGA...................................................................................................	24	1	45.00	43.00	0.00	0.00	2.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	23	1	41.00	41.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCGAT..................................................................................................	25	1	34.00	24.00	0.00	0.00	10.00
......................................................................TTAAGTAGTG-----------GATACACAAGGCGA...................................................................................................	24	1	30.00	30.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGC.....................................................................................................	22	1	29.00	24.00	0.00	0.00	5.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCGG...................................................................................................	24	1	29.00	8.00	0.00	0.00	21.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCGC...................................................................................................	24	1	23.00	23.00	0.00	0.00	0.00
...................................................................................................................................GCATTGTATGGCCTACTTAACC...................................................	22	2	11.50	0.00	0.00	0.00	11.50
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGT...................................................................................................	24	1	21.00	21.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAAGCGAT..................................................................................................	24	1	20.00	16.00	0.00	0.00	4.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGCT..................................................................................................	25	1	19.00	19.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGG......................................................................................................	21	1	19.00	18.00	0.00	0.00	1.00
..................................................................................................................................CGCATTGTATGGCCTACTTAACC...................................................	23	2	9.00	0.00	0.00	0.00	9.00
......................................................................TTAAGTAGTG-----------GATACCAAAGGCGC...................................................................................................	24	1	18.00	18.00	0.00	0.00	0.00
...................................................................................................................................GCATTGTATGGCCTACTTAAC....................................................	21	2	8.50	3.00	0.00	0.00	5.50
......................................................................TTAAGTACTG-----------GATACAAAAGGCGA...................................................................................................	24	1	17.00	1.00	0.00	0.00	16.00
......................................................................TTAAGTAGTG-----------GATACCAAAAGCGA...................................................................................................	24	1	15.00	15.00	0.00	0.00	0.00
......................................................................TTAAGTxxTG-----------GATACAAAAGGCGA...................................................................................................	22	1	14.00	0.00	0.00	0.00	14.00
......................................................................TTAAGTATTG-----------GATACAAAAGGCGA...................................................................................................	24	1	13.00	0.00	0.00	0.00	13.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGGT..................................................................................................	25	1	13.00	13.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACCAAAGGCGG...................................................................................................	24	1	13.00	13.00	0.00	0.00	0.00
......................................................................TTAAGGAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	13.00	13.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGATT.................................................................................................	25	1	12.00	12.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGATA.................................................................................................	25	1	12.00	12.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAACGCGA...................................................................................................	24	1	11.00	10.00	0.00	0.00	1.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGTGA...................................................................................................	24	1	11.00	11.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGGGG...................................................................................................	24	1	11.00	10.00	0.00	0.00	1.00
......................................................................TTAAGTAGTG-----------GGTACAAAAGGCGA...................................................................................................	24	1	10.00	9.00	0.00	0.00	1.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGGT..................................................................................................	24	1	10.00	10.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGAGA...................................................................................................	24	1	10.00	10.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCCA...................................................................................................	24	1	9.00	9.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATAAAAAAAGCGA...................................................................................................	24	1	9.00	7.00	0.00	0.00	2.00
......................................................................TTAAGTAGTG-----------GATAAAAAAGGGGA...................................................................................................	24	1	8.00	7.00	0.00	0.00	1.00
.....................................................................................................................................ATTGTATGGCCTxCTAAAC....................................................	18	2	4.00	0.00	0.00	3.50	0.50
.......................................................................TAAGTAGTG-----------GATACAAAAGGC.....................................................................................................	21	1	8.00	8.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGG...................................................................................................	23	1	8.00	8.00	0.00	0.00	0.00
...........................................................................................................................AT-----CGCATTGTATGGCCTACTTAACT...................................................	25	1	8.00	1.00	0.00	0.00	7.00
.......................................................................TAAGTAGTG-----------GATACCAAAGGCGAT..................................................................................................	24	1	8.00	8.00	0.00	0.00	0.00
...................................................................................................................................GCATTGTATGGCCTACTTAACG...................................................	22	2	4.00	0.00	0.00	0.00	4.00
...................................................................................................................................GCATTGTATGGCCTACTTAACTT..................................................	23	2	4.00	0.00	0.00	0.00	4.00
......................................................................TTAAGTAGTG-----------GATAAAAAAGGCGG...................................................................................................	24	1	7.00	1.00	0.00	0.00	6.00
...........................................................................................................................AT-----CGCATTGTATGGCCTACTT.......................................................	21	1	7.00	0.00	0.00	0.00	7.00
......................................................................TTAAGTAGTG-----------GATACAAAATGCGA...................................................................................................	24	1	7.00	7.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATAAAAAAGGCG....................................................................................................	23	1	7.00	3.00	0.00	0.00	4.00
......................................................................TTAAGTAGTG-----------GATACCAAAGGCGAT..................................................................................................	25	1	7.00	7.00	0.00	0.00	0.00
......................................................................TTAAGTAGTC-----------GATACAAAAGGCGA...................................................................................................	24	1	7.00	2.00	0.00	0.00	5.00
......................................................................TTAAGTAGTG-----------GATATAAAAGGCGA...................................................................................................	24	1	6.00	5.00	0.00	0.00	1.00
......................................................................TTAAGTAGCG-----------GATACAAAAGGCGA...................................................................................................	24	1	6.00	5.00	0.00	0.00	1.00
......................................................................TTAAGTAGTG-----------GATACACAAGGCGG...................................................................................................	24	1	6.00	6.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACGAAAGGCGA...................................................................................................	24	1	6.00	6.00	0.00	0.00	0.00
......................................................................TTAAGTAGAG-----------GATACAAAAGGCGA...................................................................................................	24	1	6.00	6.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAACAGGCGA...................................................................................................	24	1	6.00	6.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGGGA...................................................................................................	24	1	6.00	6.00	0.00	0.00	0.00
......................................................................TTAAGGAGTG-----------GATACAAAAGGCGG...................................................................................................	24	1	6.00	6.00	0.00	0.00	0.00
......................................................................TTAAGCAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	6.00	5.00	0.00	0.00	1.00
......................................................................TTAAGTAGTG-----------GATACTAAAGGCGT...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCCA...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGGG....................................................................................................	23	1	5.00	5.00	0.00	0.00	0.00
.........................................................................................................................T-AT-----CGCATTGTATGGCCTACTTAACT...................................................	26	1	5.00	0.00	0.00	0.00	5.00
...........................................................................................................................AT-----CGCATTGTATGGCCTACTTAAC....................................................	24	1	5.00	2.00	0.00	0.00	3.00
......................................................................TTAAGAAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACACAAGGCGC...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAG......................................................................................................	21	1	5.00	5.00	0.00	0.00	0.00
....................................................................................................................................CATTGTATGGCCTACTTAACTT..................................................	22	2	2.50	0.00	0.00	0.00	2.50
......................................................................TTAAGTAGTG-----------GATACAAAAAGTGA...................................................................................................	24	1	4.00	4.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACCAAAGGC.....................................................................................................	22	1	4.00	4.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGGGGT..................................................................................................	24	1	4.00	4.00	0.00	0.00	0.00
..................................................................................................................................CGCATTGTATGGCCTACT........................................................	18	2	2.00	0.00	0.00	0.00	2.00
......................................................................TTAAGTAGTG-----------GATACAAAAG.......................................................................................................	20	1	4.00	3.00	0.00	0.00	1.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCG....................................................................................................	22	1	4.00	3.00	0.00	0.00	1.00
......................................................................TTAAGTAGTT-----------GATACAAAAGGCGA...................................................................................................	24	1	4.00	1.00	0.00	0.00	3.00
......................................................................TTAAGTAGTG-----------GATGCAAAAGGCGA...................................................................................................	24	1	4.00	4.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAACGGCGA...................................................................................................	24	1	4.00	4.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACCAAAGGCGT...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00
..................................................................................................................................CGCATTGTATGGCCTACTT.......................................................	19	2	1.50	0.00	0.00	0.00	1.50
......................................................................TTAGGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	3.00	2.00	0.00	0.00	1.00
...........................................................................................................................AT-----CGCATTGTATGGCCTACT........................................................	20	1	3.00	0.00	0.00	0.00	3.00
......................................................................TTAAGTAGTG-----------GATAAAAAAGGCGAT..................................................................................................	25	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------TATACAAAAGGCGA...................................................................................................	24	1	3.00	0.00	0.00	0.00	3.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGGGAT..................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAAGC.....................................................................................................	21	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATAAAAAAGGCGC...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAAGTAxTG-----------GATACAAAAGGCGA...................................................................................................	23	1	3.00	0.00	0.00	0.00	3.00
......................................................................TTAAGTAGTG-----------GATACAACAGGCGC...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGAA..................................................................................................	25	1	3.00	3.00	0.00	0.00	0.00
......................................................................TTAAGTGGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	3.00	2.00	0.00	0.00	1.00

droSec1

TGTCGGAAT----------------------AAATATAATAATAATCGGAAATATTTAGAAATTATATATTTAAGTAGTG-----------GATACAAAAGGCGATTTGATATA--A-AAGT-AT-----CGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATTCCAAC---ATAAAAT---------------------	Size	Hit Count	Total Norm	V113 Male body	V114 Embryo	V115 Head
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	28997.00	2.00	28926.00	69.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGAT..................................................................................................	25	1	2699.00	0.00	2692.00	7.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCG....................................................................................................	23	1	2191.00	0.00	2183.00	8.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGAT..................................................................................................	24	1	1993.00	0.00	1989.00	4.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	23	1	446.00	0.00	445.00	1.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGC.....................................................................................................	22	1	370.00	0.00	368.00	2.00
......................................................................TTAAGTAGTG-----------GATACAAAAGG......................................................................................................	21	1	245.00	0.00	244.00	1.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGTGA...................................................................................................	24	1	226.00	0.00	225.00	1.00
......................................................................TTAAGTAGTG-----------GATACxAAAGGCGA...................................................................................................	23	1	158.00	0.00	158.00	0.00
......................................................................TTAAGTAGTG-----------GATATAAAAGGCGA...................................................................................................	24	1	104.00	0.00	104.00	0.00
......................................................................TTAAGTAGTG-----------GATACxxAAGGCGA...................................................................................................	22	1	101.00	0.00	101.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCG....................................................................................................	22	1	99.00	0.00	98.00	1.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGAA..................................................................................................	25	1	96.00	0.00	96.00	0.00
......................................................................TTAAGTAGTG-----------GATAAAAAAGGCGA...................................................................................................	24	1	93.00	0.00	93.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGGGA...................................................................................................	24	1	87.00	0.00	86.00	1.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGATT.................................................................................................	25	1	83.00	0.00	83.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGG...................................................................................................	24	1	78.00	0.00	78.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGATT.................................................................................................	26	1	74.00	0.00	74.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAGGGCGA...................................................................................................	24	1	71.00	0.00	71.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGATA.................................................................................................	25	1	63.00	0.00	63.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGC.....................................................................................................	21	1	62.00	0.00	61.00	1.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGC...................................................................................................	24	1	51.00	0.00	51.00	0.00
......................................................................TTAAGTAGTG-----------GGTACAAAAGGCGA...................................................................................................	24	1	45.00	0.00	45.00	0.00
......................................................................TTAAGTAGTG-----------GATACACAAGGCGA...................................................................................................	24	1	41.00	0.00	41.00	0.00
......................................................................TTAAGAAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	40.00	0.00	40.00	0.00
......................................................................TTAAGTAGTx-----------GATACAAAAGGCGA...................................................................................................	23	1	38.00	0.00	38.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAGAGGCGA...................................................................................................	24	1	37.00	0.00	37.00	0.00
......................................................................TTAGGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	36.00	0.00	36.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAATGGCGA...................................................................................................	24	1	36.00	0.00	36.00	0.00
......................................................................TTAAGTAGTG-----------GATACCAAAGGCGA...................................................................................................	24	1	33.00	0.00	33.00	0.00
......................................................................TTAAGTAGTG-----------GATACAGAAGGCGA...................................................................................................	24	1	33.00	0.00	33.00	0.00
...................................................................................................................................GCATTGTATGGCCTACTTAACT...................................................	22	1	31.00	0.00	31.00	0.00
......................................................................TTAAGTGGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	31.00	0.00	31.00	0.00
......................................................................TTAAGTAGTG-----------TATACAAAAGGCGA...................................................................................................	24	1	30.00	0.00	30.00	0.00
........................................................................AAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	22	1	30.00	0.00	30.00	0.00
......................................................................TTAAGTAGTC-----------GATACAAAAGGCGA...................................................................................................	24	1	30.00	0.00	30.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGATA.................................................................................................	26	1	29.00	0.00	29.00	0.00
......................................................................TTAAGTAGTG-----------GATGCAAAAGGCGA...................................................................................................	24	1	29.00	0.00	29.00	0.00
......................................................................TTAAGCAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	29.00	0.00	29.00	0.00
......................................................................TTAAGTAGTG-----------GACACAAAAGGCGA...................................................................................................	24	1	28.00	0.00	28.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	27.00	0.00	27.00	0.00
......................................................................TTAAGTAGTG-----------GATACGAAAGGCGA...................................................................................................	24	1	26.00	0.00	26.00	0.00
.....................................................................CTTAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	25	1	26.00	0.00	26.00	0.00
......................................................................TTAAGTAGCG-----------GATACAAAAGGCGA...................................................................................................	24	1	25.00	0.00	25.00	0.00
......................................................................TTAAGTACTG-----------GATACAAAAGGCGA...................................................................................................	24	1	25.00	0.00	25.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGT...................................................................................................	24	1	24.00	0.00	24.00	0.00
......................................................................TTAAGTATTG-----------GATACAAAAGGCGA...................................................................................................	24	1	23.00	0.00	23.00	0.00
......................................................................TTAAGTAGAG-----------GATACAAAAGGCGA...................................................................................................	24	1	22.00	0.00	22.00	0.00
......................................................................TTAACTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	22.00	0.00	22.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAA........................................................................................................	19	1	22.00	0.00	22.00	0.00
......................................................................TTGAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	21.00	0.00	21.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGCCGA...................................................................................................	24	1	21.00	0.00	21.00	0.00
......................................................................TTAAGTTGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	20.00	0.00	20.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAG.......................................................................................................	20	1	20.00	0.00	20.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGTCGA...................................................................................................	24	1	19.00	0.00	19.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAACGCGA...................................................................................................	24	1	18.00	0.00	18.00	0.00
......................................................................TTAAGTAGTA-----------GATACAAAAGGCGA...................................................................................................	24	1	18.00	0.00	18.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCAA...................................................................................................	24	1	18.00	0.00	18.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCGA...................................................................................................	24	1	17.00	0.00	17.00	0.00
......................................................................TTATGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	17.00	0.00	17.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCA....................................................................................................	23	1	17.00	0.00	17.00	0.00
......................................................................TTAAGTxxTG-----------GATACAAAAGGCGA...................................................................................................	22	1	16.00	0.00	16.00	0.00
.......................................................................TAAGTAGTG-----------GATACxAAAGGCGAT..................................................................................................	23	1	15.00	0.00	15.00	0.00
......................................................................TTAAGTAGTG-----------GTTACAAAAGGCGA...................................................................................................	24	1	15.00	0.00	15.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCCA...................................................................................................	24	1	15.00	0.00	15.00	0.00
........................................................................AAGTAGTG-----------GATACAAAAGGCGAT..................................................................................................	23	1	15.00	0.00	15.00	0.00
......................................................................TTAAGTAGTG-----------GATACxAAAGGCG....................................................................................................	22	1	15.00	0.00	15.00	0.00
......................................................................TTAAGTAGTT-----------GATACAAAAGGCGA...................................................................................................	24	1	15.00	0.00	15.00	0.00
......................................................................TTAAGTAGTG-----------AATACAAAAGGCGA...................................................................................................	24	1	14.00	0.00	14.00	0.00
......................................................................TTAAGTAGTG-----------GATACxxAAGGCGAT..................................................................................................	23	1	14.00	0.00	14.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGACGA...................................................................................................	24	1	14.00	0.00	13.00	1.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCTA...................................................................................................	24	1	14.00	0.00	14.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAATGCGA...................................................................................................	24	1	13.00	0.00	13.00	0.00
......................................................................TTAAGTAGTG-----------GATATAAAAGGCGAT..................................................................................................	25	1	13.00	0.00	13.00	0.00
......................................................................TTAAGTAGTG-----------CATACAAAAGGCGA...................................................................................................	24	1	13.00	0.00	13.00	0.00
......................................................................TTAAGTAGTG-----------GATACAATAGGCGA...................................................................................................	24	1	13.00	0.00	13.00	0.00
......................................................................TTAAGTAGTx-----------xATACAAAAGGCGA...................................................................................................	22	1	13.00	0.00	13.00	0.00
......................................................................TTAAGTAATG-----------GATACAAAAGGCGA...................................................................................................	24	1	12.00	0.00	12.00	0.00
......................................................................TCAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	12.00	0.00	12.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAA.........................................................................................................	18	1	12.00	0.00	12.00	0.00
......................................................................TTTAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	12.00	0.00	12.00	0.00
......................................................................TTAAGTAGTG-----------GATACxAAAGGCGAT..................................................................................................	24	1	11.00	0.00	11.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGAC..................................................................................................	25	1	11.00	0.00	11.00	0.00
......................................................................TTAATTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	11.00	0.00	11.00	0.00
..................................................................................................................................CGCATTGTATGGCCTACTTAAC....................................................	22	1	11.00	0.00	11.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGAGA...................................................................................................	24	1	11.00	0.00	11.00	0.00
............................................................................AGTG-----------GATACAAAAGGCGA...................................................................................................	18	1	10.00	0.00	10.00	0.00
.......................................................................TAAGTAGTG-----------GATATAAAAGGCGAT..................................................................................................	24	1	10.00	0.00	10.00	0.00
.......................................................................TAAGTAGTG-----------GATACxxAAGGCGAT..................................................................................................	22	1	10.00	0.00	10.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAGAGGCG....................................................................................................	23	1	10.00	0.00	10.00	0.00
......................................................................TTAAGTAGTG-----------GAAACAAAAGGCGA...................................................................................................	24	1	10.00	0.00	10.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGGGAT..................................................................................................	25	1	10.00	0.00	9.00	1.00
......................................................................CTAAGTAGTG-----------GATACAAAAGGCGAT..................................................................................................	25	1	9.00	0.00	9.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAGGGCG....................................................................................................	23	1	9.00	0.00	9.00	0.00
.....................................................................TTTAAGTAGTG-----------GATACAAAAGGCG....................................................................................................	24	1	9.00	0.00	9.00	0.00
......................................................................TTAAGTAGTG-----------GATCCAAAAGGCGA...................................................................................................	24	1	8.00	0.00	8.00	0.00
......................................................................TTAAGTAGTG-----------GATAAAAAAGGCG....................................................................................................	23	1	8.00	0.00	8.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAxGCGA...................................................................................................	23	1	8.00	0.00	8.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGG......................................................................................................	20	1	8.00	0.00	8.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAACGGCGA...................................................................................................	24	1	8.00	0.00	8.00	0.00

droYak2

TATGCTT---CGA---------AGTTT----TAAAAAAAT-----------------------TATATATTTAAGTAGTG-----------GATACAAAAGGCGATTGA-TATA--A-AAAT-GT-----CGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATCCCAAC---TT----A---------------------	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	2424.00	2417.00	2.00	0.00	5.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCGA...................................................................................................	24	1	287.00	286.00	0.00	0.00	1.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCG....................................................................................................	23	1	128.00	127.00	0.00	0.00	1.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGG...................................................................................................	24	1	111.00	111.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGC...................................................................................................	24	1	69.00	69.00	0.00	0.00	0.00	0.00
...................................................................................................................................GCATTGTATGGCCTACTTAACT...................................................	22	1	60.00	59.00	0.00	0.00	0.00	1.00
......................................................................TTAAGTAGTG-----------GATACCAAAGGCGA...................................................................................................	24	1	57.00	56.00	0.00	0.00	1.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	23	1	44.00	44.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGGGA...................................................................................................	24	1	43.00	43.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCG....................................................................................................	23	1	32.00	32.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATAAAAAAGGCGA...................................................................................................	24	1	31.00	31.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCGG...................................................................................................	24	1	17.00	17.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGG......................................................................................................	21	1	16.00	16.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACACAAGGCGA...................................................................................................	24	1	14.00	14.00	0.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGAT..................................................................................................	24	1	14.00	13.00	0.00	0.00	1.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAACGCGA...................................................................................................	24	1	13.00	13.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGC.....................................................................................................	22	1	13.00	13.00	0.00	0.00	0.00	0.00
.......................................................................................................................AAT-xT-----TGCATTGTATGGCC............................................................	18	1	12.00	0.00	0.00	0.00	0.00	12.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGC.....................................................................................................	22	1	12.00	12.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGT...................................................................................................	24	1	10.00	10.00	0.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCG....................................................................................................	22	1	9.00	9.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATAAAAAAAGCGA...................................................................................................	24	1	9.00	9.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGGGA...................................................................................................	24	1	9.00	9.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGGGG...................................................................................................	24	1	8.00	8.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAACAGGCGA...................................................................................................	24	1	7.00	7.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACCAAAGGCGG...................................................................................................	24	1	7.00	7.00	0.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAAGCGA...................................................................................................	23	1	6.00	6.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGAT..................................................................................................	25	1	6.00	6.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCCA...................................................................................................	24	1	6.00	5.00	0.00	0.00	1.00	0.00
......................................................................TTAAGTAGTG-----------GATACACAAGGCGC...................................................................................................	24	1	6.00	6.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTA-----------GATACAAAAGGCGA...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACCAAAGGCGC...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAGCGC...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACACAAAGCGA...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAGGCGG...................................................................................................	23	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GACACAAAAGGCGA...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GGTACAAAAGGCGA...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAAGGAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACCAAAAGCGA...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGAGA...................................................................................................	24	1	4.00	4.00	0.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	4.00	4.00	0.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAAGCG....................................................................................................	22	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TCAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGCGAC..................................................................................................	25	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAATGCGG...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAAG......................................................................................................	21	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAGGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATATAAAAGGCGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAAAAGC.....................................................................................................	21	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATGCAAAAGGCGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAACGCGC...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTGAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATAAAAAAGGGGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAACGGCGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACCACAGGCGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGCG-----------GATACAAAAGGCGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00
......................................................................TTAAGTAGTG-----------GATACAAAAGGTGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00	0.00

droEre2

TCTATAT---TAAT-----------T-----GATCAAAAT-----------------------TATATATCTAAGTAGTG-----------GATACAAACGGCGATTTGGTATA--A-AAAT-GT-----CGCATTGTATGACCTGCTTAACTAGCTGATTTTGTATCCCAAC---GTACAAA---------------------	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
......................................................................CTAAGTAGTG-----------GATACAAACGGCGA...................................................................................................	24	1	236.00	235.00	0.00	0.00	1.00
......................................................................CTAAGTAGTG-----------GATACAAACGGCG....................................................................................................	23	1	49.00	49.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACCGCGA...................................................................................................	24	1	41.00	41.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACGGCGG...................................................................................................	24	1	27.00	27.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACGGC.....................................................................................................	22	1	21.00	20.00	0.00	0.00	1.00
......................................................................CTAAGTAGTG-----------GATACAAACCGCG....................................................................................................	23	1	14.00	14.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACCGCCA...................................................................................................	24	1	13.00	13.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAAAGGCGA...................................................................................................	24	1	12.00	12.00	0.00	0.00	0.00
...................................................................................................................................GCATTGTATGACCTGCTTAACT...................................................	22	1	12.00	12.00	0.00	0.00	0.00
.......................................................................TAAGTAGTG-----------GATACAAACGGCGAT..................................................................................................	24	1	10.00	10.00	0.00	0.00	0.00
....................................................................................................................................CATTGTATGACCTGCTTAACT...................................................	21	1	9.00	9.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACCGC.....................................................................................................	22	1	8.00	8.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACGGCCA...................................................................................................	24	1	8.00	8.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACCGCGAC..................................................................................................	25	1	7.00	7.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACGGCGC...................................................................................................	24	1	6.00	6.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACAGCGA...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACCGCGC...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACCAACGGCGA...................................................................................................	24	1	5.00	5.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACGGCGAC..................................................................................................	25	1	4.00	4.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACCAACCGCGA...................................................................................................	24	1	4.00	4.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACCGCC....................................................................................................	23	1	4.00	4.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAAACGCGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAAAGGCGG...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACGGCGAT..................................................................................................	25	1	3.00	3.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACGGGGA...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00
......................................................................CTAAGGAGTG-----------GATACAAACGGCGG...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00
......................................................................CTAAGTAGTG-----------GATACAAACGGGGG...................................................................................................	24	1	3.00	3.00	0.00	0.00	0.00

droEug1

TATATAC---AAAT-----------TAATTTTACAAAAAT-----------------------CATATACTTAAGTAGTG-----------GATACAAATTGCGATTTTAA--A--A-TATA-CT-----CGCATTGTATGGCCTACTTAGTTAGTTGATTTTTAACACCGTCAAGATAAAAG---------------------

Size

Hit Count

Total Norm

droBia1

TTTAAAA--TA-TTT-------AGAAT----TTAGAAAAT-----------------------CATTTGTTTAAGTAGTG-----------CATACAAAAGGCGATTTGCTATC--A-AACG-TT-----CGCATTGTATGCCCTACTTAACTAGTTGGTTTTTCTAAGCAAC---ATTAAAATTATTG---------------

Size

Hit Count

Total Norm

droTak1

TGTTTTT---GAA-----------ATT----TCAAAAAAT-----------------------CATACATTTAAGTAGTG-----------GATACAAAAGGCGATTTGCTAAT--AAAATG-TT-----CGCATTGTATGGCCTACTTAACTAACTGATTTTTTTTAACAAC---ATTAAAATAACTGCTGAATACAAAAGAT

Size

Hit Count

Total Norm

droEle1

TATGTTT---T-------------GTT----TAAAAAAAT-----------------------CATGTATTTAAGTAGTG-----------GATACAAAAGGCGATTTACAAAA--TAAATG-TT-----CGCATTGTATGCCCTACTTAACTAGCAGGTTTTTCCAAGCAAC---AAC--AA---------------------

Size

Hit Count

Total Norm

droRho1

GTTATA--------------------------AAAAAAAT-----------------------CATATGTTTAAGTAGTG-----------GATACAAATGGCGACTTGCAAACG-A-AATG-TT-----CGCATTGTATGTCCTACTTAAGTAGCTGATTTTTCCAAGCGTC---ATTAAAGTAATTG---------------

Size

Hit Count

Total Norm

droFic1

TATATTT---TTA---------ACATA----TTAAAAAAT-----------------------TATACGTTTAAGTAGTG-----------GATACAAAAGGCGATTTGTATAA--CGAAAG-TT-----CGCATTGTATGTCCTACTTAAGTGGCTGATTTTTTCAAGCAAC---ATC---A---------------------

Size

Hit Count

Total Norm

droKik1

CATATCT---GTT-----------AAT----TAAGAAAAT-----------------------CGTATGTTTAAGTAGTG-----------GATACAA-CGGCGATTGAACACA--ATAATC-TT-----CGCAGTGTGTTACCTACTTAATTAGTCGATTTT-----------------------------------------

Size

Hit Count

Total Norm

droAna3

TCATAAA--TA-TCT--------GTGC----AAACTAAAT-----------------------CATGTGTTTAAGTAGGC-----------AATACAT-GGGCGACTAAATAAA--A-TATA-CT-----CGCAATGTATAGCCTACATAACTAGTTGATTTTTGCAAGCATC---------C---------------------	Size	Hit Count	Total Norm	V105 Male body	V106 Head	V055 Unknown	V039 Embryo
......................................................................TTAAGTAGGC-----------AATACAT-GGGCGA...................................................................................................	23	1	1038.00	7.00	24.00	5.00	1002.00
......................................................................TTAAGTAGGC-----------AATACAT-GGG......................................................................................................	20	1	180.00	0.00	3.00	0.00	177.00
......................................................................TTAAGTAGGC-----------AATACAT-GGGC.....................................................................................................	21	1	70.00	2.00	1.00	0.00	67.00
......................................................................TTAAGTAGGC-----------AATACAT-GGGCG....................................................................................................	22	1	61.00	2.00	2.00	0.00	57.00
......................................................................TTAAGTAGGC-----------AATACAT-GG.......................................................................................................	19	1	18.00	0.00	0.00	0.00	18.00
......................................................................TTAAGTAGGC-----------AATACAT-TGGCGA...................................................................................................	23	1	17.00	0.00	0.00	0.00	17.00
.......................................................................TAAGTAGGC-----------AATACAT-GGGCGA...................................................................................................	22	1	16.00	0.00	0.00	0.00	16.00
......................................................................TTAAGTAGGC-----------AATACAT-GTGCGA...................................................................................................	23	1	15.00	0.00	1.00	0.00	14.00
......................................................................TTAAGTAGGC-----------AATACAT-GGGCTA...................................................................................................	23	1	14.00	0.00	1.00	0.00	13.00
......................................................................TTAAGGAGGC-----------AATACAT-GGGCGA...................................................................................................	23	1	13.00	0.00	0.00	0.00	13.00
......................................................................TTAAGCAGGC-----------AATACAT-GGGCGA...................................................................................................	23	1	10.00	0.00	0.00	1.00	9.00
......................................................................TTAAGTAGGC-----------AATACAT-GGGCGG...................................................................................................	23	1	9.00	0.00	0.00	0.00	9.00
......................................................................TTAAGTAGGC-----------AATACAT-GGGCGC...................................................................................................	23	1	9.00	0.00	0.00	0.00	9.00
......................................................................TTAAGTATGC-----------AATACAT-GGGCGA...................................................................................................	23	1	9.00	0.00	0.00	0.00	9.00
......................................................................TTAAGTAGGC-----------AATACAT-GTG......................................................................................................	20	1	8.00	0.00	0.00	0.00	8.00
......................................................................TTAAGTAGTC-----------AATACAT-GGGCGA...................................................................................................	23	1	6.00	0.00	0.00	0.00	6.00
......................................................................TTAAGTAGGC-----------AATACCT-GGG......................................................................................................	20	1	6.00	0.00	0.00	0.00	6.00
......................................................................TTAAGTAGGC-----------AATACAT-TGGC.....................................................................................................	21	1	5.00	0.00	0.00	0.00	5.00
......................................................................TTAAGTAGGC-----------AATACCT-GGGCGA...................................................................................................	23	1	5.00	0.00	0.00	0.00	5.00
...................................................................................................................................GCAATGTATAGCCTACATAACT...................................................	22	1	5.00	0.00	0.00	0.00	5.00
......................................................................TTAAGTAGGC-----------AATACAT-CGGCGA...................................................................................................	23	1	4.00	0.00	0.00	0.00	4.00
......................................................................TTAAGTACGC-----------AATACAT-CGGCGA...................................................................................................	23	1	4.00	0.00	0.00	0.00	4.00
......................................................................TTAAGTAGGC-----------AATACAC-GGGCGA...................................................................................................	23	1	4.00	0.00	0.00	0.00	4.00
......................................................................TTAAGTAGGC-----------AATACAT-GGTCGA...................................................................................................	23	1	4.00	0.00	0.00	0.00	4.00
.....................................................................TTTAAGTAGGC-----------AATACAT-GGGCGA...................................................................................................	24	1	4.00	0.00	0.00	0.00	4.00
......................................................................TTAAGTAGGC-----------AATACAT-GGGAGA...................................................................................................	23	1	4.00	0.00	0.00	0.00	4.00
......................................................................TTAAGTAGGC-----------AATACAT-GGGCCA...................................................................................................	23	1	4.00	0.00	0.00	0.00	4.00
......................................................................TTAAGTAGGC-----------AATACAT-AGGCGA...................................................................................................	23	1	4.00	0.00	0.00	0.00	4.00
......................................................................TTAAGGAGGC-----------AATACAT-GGG......................................................................................................	20	1	4.00	0.00	0.00	0.00	4.00
......................................................................TTAAGTAGGC-----------AATACAT-GGGCGT...................................................................................................	23	1	3.00	1.00	0.00	0.00	2.00
......................................................................TTAAGTAGGC-----------AATACAT-GCGCGA...................................................................................................	23	1	3.00	0.00	0.00	0.00	3.00
........................................................................AAGTAGGC-----------AATACAT-GGGCGA...................................................................................................	21	1	3.00	0.00	0.00	0.00	3.00
......................................................................TTAAGTACGC-----------AATACAT-GGGCGA...................................................................................................	23	1	3.00	0.00	0.00	0.00	3.00
......................................................................TTAAGTAGGC-----------ACTACAT-GGGCGA...................................................................................................	23	1	3.00	0.00	0.00	0.00	3.00
......................................................................TTAAGTAGGC-----------AATACAT-G........................................................................................................	18	1	3.00	0.00	0.00	0.00	3.00
......................................................................TTAAGTATGC-----------AATACAT-GGG......................................................................................................	20	1	3.00	0.00	0.00	0.00	3.00

droBip1

CTTCTTA---ATA-----------TAC----AACTTAAAT-----------------------CATGTGTTTAAGTAGGC-----------AATACAT-GGGCGATTCATTA--------CA-TT-----CGCAATGTATGGCTTACATAACTAGTTGATTTTTGAAGTCATC--------CA---------------------

Size

Hit Count

Total Norm

dp4

CCTCTC--------------------------AAAATAAT-----------------------CGGGCACCTAAGTAGTT-----------GATACAA-GGGCGATAATGTAAA--AGAACT-TT-----CGCATTGTGTGACCTACTTAAATGCTCGATTGTTTCAAGCAAC---CT--------------------------	Size	Hit Count	Total Norm	V112 Male body	V043 Embryo	V051 Head	M022 Male body
......................................................................CTAAGTAGTT-----------GATACAA-GGGCGA...................................................................................................	23	1	1684.00	0.00	1684.00	0.00	0.00
.......................................................................TAAGTAGTT-----------GATACAA-GGGCGA...................................................................................................	22	1	223.00	0.00	223.00	0.00	0.00
...................................................................................................................................GCATTGTGTGACCTACTTAAAT...................................................	22	1	190.00	0.00	189.00	1.00	0.00
.......................................................................TAAGTAGTT-----------GATACAA-GGGCGAT..................................................................................................	23	1	154.00	0.00	154.00	0.00	0.00
......................................................................TTAAGTAGTT-----------GATACAA-AGGCGA...................................................................................................	23	1	121.00	0.00	121.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGC.....................................................................................................	21	1	104.00	0.00	104.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGCG....................................................................................................	22	1	40.00	0.00	40.00	0.00	0.00
..................................................................................................................................CGCATTGTGTGACCTACTTAAA....................................................	22	1	37.00	0.00	37.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGG......................................................................................................	20	1	36.00	0.00	36.00	0.00	0.00
.......................................................................TAAGTAGTT-----------GATACAA-GGGC.....................................................................................................	20	1	31.00	0.00	31.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGCGC...................................................................................................	23	1	19.00	0.00	19.00	0.00	0.00
...................................................................................................................................GCATTGTGTGACCTACTTAAA....................................................	21	1	18.00	0.00	18.00	0.00	0.00
...................................................................................................................................GCATTGTGTGAGCTACTTAAAT...................................................	22	1	18.00	0.00	18.00	0.00	0.00
.....................................................................CCTAAGTAGTT-----------GATACAA-GGGCG....................................................................................................	23	1	15.00	0.00	15.00	0.00	0.00
......................................................................CTAAGGAGTT-----------GATACAA-GGGCGA...................................................................................................	23	1	13.00	0.00	13.00	0.00	0.00
.......................................................................TAAGTAGTT-----------GATACAA-GGGCG....................................................................................................	21	1	13.00	0.00	13.00	0.00	0.00
............................................................................................................................T-----CGCATTGTGTGACCTACTTAAA....................................................	23	1	12.00	0.00	12.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGCGT...................................................................................................	23	1	11.00	0.00	11.00	0.00	0.00
...........................................................................................................................TT-----CGCATTGTGTGACCTACTTA......................................................	22	1	10.00	0.00	10.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GG.......................................................................................................	19	1	9.00	0.00	9.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGCGG...................................................................................................	23	1	9.00	0.00	9.00	0.00	0.00
...........................................................................................................................TT-----CGCATTGTGTGACCTACTTAAA....................................................	24	1	7.00	0.00	7.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGAGA...................................................................................................	23	1	7.00	0.00	7.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GAGCGA...................................................................................................	23	1	6.00	0.00	6.00	0.00	0.00
............................................................................................................................T-----CGCATTGTGTGACCTACTTAA.....................................................	22	1	6.00	0.00	6.00	0.00	0.00
.......................................................................TAAGTAGTT-----------GATACAA-GGG......................................................................................................	19	1	6.00	0.00	6.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACCA-GGGCGA...................................................................................................	23	1	6.00	0.00	6.00	0.00	0.00
......................................................................CTAAGTAGGT-----------GATACAA-GGGCGA...................................................................................................	23	1	6.00	0.00	6.00	0.00	0.00
......................................................................ATAAGTAGTT-----------GATACAA-GGGCGA...................................................................................................	23	1	6.00	0.00	6.00	0.00	0.00
..................................................................................................................................CGCATTGTGTGACCTACTTAA.....................................................	21	1	5.00	0.00	5.00	0.00	0.00
......................................................................CTAAGCAGTT-----------GATACAA-GGGCGA...................................................................................................	23	1	5.00	0.00	5.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACGA-GGGCGA...................................................................................................	23	1	5.00	0.00	5.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGCGAT..................................................................................................	24	1	5.00	0.00	5.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAC-GGGCGA...................................................................................................	23	1	5.00	0.00	5.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAG-GGGCGA...................................................................................................	23	1	5.00	0.00	5.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATAAAA-GGGCGA...................................................................................................	23	1	5.00	0.00	5.00	0.00	0.00
....................................................................................................................................CATTGTGTGACCTACTTAAATG..................................................	22	1	4.00	0.00	4.00	0.00	0.00
......................................................................CTAAGTAGCT-----------GATACAA-GGGCGA...................................................................................................	23	1	4.00	0.00	4.00	0.00	0.00
......................................................................CTAAGTGGTT-----------GATACAA-GGGCGA...................................................................................................	23	1	4.00	0.00	4.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-AGGCGA...................................................................................................	23	1	4.00	0.00	4.00	0.00	0.00
......................................................................TTAAGTAGTT-----------GATACAA-GGGCGA...................................................................................................	23	1	3.00	0.00	3.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACTA-GGGCGA...................................................................................................	23	1	3.00	0.00	3.00	0.00	0.00
...................................................................................................................................GAATTGTGTGACCTACTTAAAT...................................................	22	1	3.00	0.00	3.00	0.00	0.00
......................................................................CTAAGGAGTT-----------GATACAA-GGGC.....................................................................................................	21	1	3.00	0.00	3.00	0.00	0.00
...................................................................................................................................GCATTGTGTGACCTACTTAA.....................................................	20	1	3.00	0.00	3.00	0.00	0.00
...................................................................................................................................GCATTGTGTGACATACTTAAAT...................................................	22	1	3.00	0.00	3.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGAGG...................................................................................................	23	1	3.00	0.00	3.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATATAA-GGGCGA...................................................................................................	23	1	3.00	0.00	3.00	0.00	0.00

droPer1

CCTCTC--------------------------AAAATAAT-----------------------CGGGCACCTAAGTAGTT-----------GATACAA-GGGCGATAATGTAAA--AGAACT-TT-----CGCATTGTGTGACCTACTTAAATGCCCGATTGTTTCAAGCAAC---CTCTAAA---------------------	Size	Hit Count	Total Norm	V111 Male body	V042 Embryo	V050 Head	V057 Head	M021 Embryo
......................................................................CTAAGTAGTT-----------GATACAA-GGGCGA...................................................................................................	23	1	854.00	0.00	440.00	1.00	22.00	391.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGC.....................................................................................................	21	1	138.00	0.00	17.00	0.00	0.00	121.00
...................................................................................................................................GCATTGTGTGACCTACTTAAAT...................................................	22	1	94.00	0.00	63.00	0.00	0.00	31.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGCG....................................................................................................	22	1	62.00	0.00	12.00	0.00	1.00	49.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGCGG...................................................................................................	23	1	55.00	0.00	1.00	0.00	0.00	54.00
..TCTC--------------------------AAAATAAT-----------------------CGGGCAC......................................................................................................................................	19	1	21.00	0.00	2.00	0.00	0.00	19.00
.......................................................................TAAGTAGTT-----------GATACAA-GGGCGA...................................................................................................	22	1	16.00	0.00	12.00	0.00	0.00	4.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGCGC...................................................................................................	23	1	15.00	0.00	5.00	0.00	0.00	10.00
.CTCTC--------------------------AAAATAAT-----------------------CGGGCAC......................................................................................................................................	20	1	9.00	0.00	0.00	0.00	0.00	9.00
.......................................................................TAAGTAGTT-----------GATACAA-GGGCGAT..................................................................................................	23	1	6.00	0.00	2.00	0.00	0.00	4.00
.....................................................................CCTAAGTAGTT-----------GATACAA-GGGCG....................................................................................................	23	1	5.00	0.00	0.00	0.00	1.00	4.00
...................................................................................................................................GCATTGTGTGACCTACTTAAA....................................................	21	1	5.00	0.00	3.00	0.00	0.00	2.00
......................................................................CTAATTAGTT-----------GATACAA-GGGCGAT..................................................................................................	24	1	5.00	0.00	0.00	0.00	0.00	5.00
......................................................................CTAAGTAGTT-----------GATACAA-GG.......................................................................................................	19	1	4.00	0.00	3.00	0.00	0.00	1.00
.........................................................................................................TAATGTAAA--AGAACT-TT-----C.........................................................................	18	1	4.00	0.00	0.00	0.00	0.00	4.00
......................................................................CTAAGTATTT-----------GATACAA-GGGCGA...................................................................................................	23	1	4.00	0.00	0.00	0.00	0.00	4.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGAGA...................................................................................................	23	1	4.00	0.00	4.00	0.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGCGAC..................................................................................................	24	1	4.00	0.00	0.00	0.00	0.00	4.00
....................................................................................................................................CATTGTGTGACCTACTTAAATG..................................................	22	1	3.00	0.00	0.00	0.00	0.00	3.00
......................................................................CTAAGTAGTT-----------GATACAA-GGG......................................................................................................	20	1	3.00	0.00	2.00	0.00	0.00	1.00
......................................................................TTAAGTAGTT-----------GATACAA-GGGCGA...................................................................................................	23	1	3.00	0.00	3.00	0.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATACAA-GGGCGT...................................................................................................	23	1	3.00	0.00	2.00	0.00	0.00	1.00
............................................................................................................................T-----CGCATTGTGTGACCTACTTAAA....................................................	23	1	3.00	0.00	3.00	0.00	0.00	0.00
......................................................................CTAAGTAGTT-----------GATAAAA-GGGCGA...................................................................................................	23	1	3.00	0.00	3.00	0.00	0.00	0.00

droWil1

TCATTTG---A-TCT-------GGTCA----TTGAAAAAT-----------------------GTTACACTTAAGTAGTT-----------AATACAA-TGGCGATTCGTATTCCAT-TGTACAT-----CGCATTGTGTGAGTTACTTTGTTGAGAGATTTTTCCAAACAACAAGATAA-TC---------------------	Size	Hit Count	Total Norm	V117 Male body	V118 Embryo	V119 Head	M020 Head
......................................................................TTAAGTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	24858.00	0.00	24838.00	20.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCG....................................................................................................	22	1	1799.00	0.00	1798.00	1.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCGAT..................................................................................................	24	1	755.00	0.00	754.00	1.00	0.00
.......................................................................TAAGTAGTT-----------AATACAA-TGGCGAT..................................................................................................	23	1	586.00	0.00	586.00	0.00	0.00
...................................................................................................................................GCATTGTGTGAGTTACTTTGTT...................................................	22	1	96.00	0.00	96.00	0.00	0.00
.......................................................................TAAGTAGTT-----------AATACAA-TGGCGA...................................................................................................	22	1	79.00	0.00	79.00	0.00	0.00
.....................................................................CTTAAGTAGTT-----------AATACAA-TGGCG....................................................................................................	23	1	64.00	0.00	64.00	0.00	0.00
......................................................................TTAAGCAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	58.00	0.00	58.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TTGCGA...................................................................................................	23	1	43.00	0.00	43.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGTCGA...................................................................................................	23	1	37.00	0.00	37.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGAGA...................................................................................................	23	1	37.00	0.00	37.00	0.00	0.00
.....................................................................CTTAAGTAGTT-----------AATACAA-TGGCGA...................................................................................................	24	1	35.00	0.00	35.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCTA...................................................................................................	23	1	35.00	0.00	35.00	0.00	0.00
......................................................................TTAATTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	31.00	0.00	31.00	0.00	0.00
......................................................................TTAAGTATTT-----------AATACAA-TGGCGA...................................................................................................	23	1	29.00	0.00	29.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCGAA..................................................................................................	24	1	28.00	0.00	28.00	0.00	0.00
......................................................................TTAAGTAGTC-----------AATACAA-TGGCGA...................................................................................................	23	1	24.00	0.00	24.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-CGGCGA...................................................................................................	23	1	24.00	0.00	24.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACGA-TGGCGA...................................................................................................	23	1	23.00	0.00	23.00	0.00	0.00
......................................................................TTAAGGAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	22.00	0.00	22.00	0.00	0.00
......................................................................TTAAGTAGCT-----------AATACAA-TGGCGA...................................................................................................	23	1	22.00	0.00	22.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGTGA...................................................................................................	23	1	22.00	0.00	22.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TAGCGA...................................................................................................	23	1	20.00	0.00	20.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATGCAA-TGGCGA...................................................................................................	23	1	20.00	0.00	20.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAC-TGGCGA...................................................................................................	23	1	20.00	0.00	20.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGG......................................................................................................	20	1	18.00	0.00	18.00	0.00	0.00
......................................................................TTAAGTGGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	18.00	0.00	18.00	0.00	0.00
......................................................................CTAAGTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	17.00	0.00	17.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAG-TGGCGA...................................................................................................	23	1	17.00	0.00	17.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AGTACAA-TGGCGA...................................................................................................	23	1	16.00	0.00	16.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACCA-TGGCGA...................................................................................................	23	1	16.00	0.00	16.00	0.00	0.00
......................................................................TTAGGTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	16.00	0.00	16.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCAA...................................................................................................	23	1	15.00	0.00	15.00	0.00	0.00
..........................................................................TTAGTT-----------AATACAA-TGGCGA...................................................................................................	19	1	15.00	0.00	15.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCGG...................................................................................................	23	1	15.00	0.00	15.00	0.00	0.00
......................................................................TCAAGTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	14.00	0.00	14.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TCGCGA...................................................................................................	23	1	13.00	0.00	13.00	0.00	0.00
......................................................................TTAAGAAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	13.00	0.00	13.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATAAAA-TGGCGA...................................................................................................	23	1	13.00	0.00	13.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCA....................................................................................................	22	1	12.00	0.00	12.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCGATT.................................................................................................	25	1	12.00	0.00	12.00	0.00	0.00
......................................................................TTAACTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	12.00	0.00	12.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGCCGA...................................................................................................	23	1	12.00	0.00	12.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AACACAA-TGGCGA...................................................................................................	23	1	12.00	0.00	12.00	0.00	0.00
......................................................................TTAAGTAGTT-----------TATACAA-TGGCGA...................................................................................................	23	1	11.00	0.00	11.00	0.00	0.00
......................................................................TTAAGTAGTT-----------GATACAA-TGGCGA...................................................................................................	23	1	11.00	0.00	11.00	0.00	0.00
......................................................................TTGAGTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	11.00	0.00	11.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCCA...................................................................................................	23	1	10.00	0.00	10.00	0.00	0.00
.......................................................................TAAGTAGTT-----------AATACAA-TGGCG....................................................................................................	21	1	10.00	0.00	10.00	0.00	0.00
......................................................................TTAAGTACTT-----------AATACAA-TGGCGA...................................................................................................	23	1	10.00	0.00	10.00	0.00	0.00
.......................................................................TAAGTAGTT-----------AATACAA-TGGCGATT.................................................................................................	24	1	10.00	0.00	10.00	0.00	0.00
......................................................................TTAAGTCGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	10.00	0.00	10.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCGC...................................................................................................	23	1	9.00	0.00	9.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATATAA-TGGCGA...................................................................................................	23	1	9.00	0.00	9.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGC.....................................................................................................	21	1	9.00	0.00	9.00	0.00	0.00
......................................................................TTAAGTAATT-----------AATACAA-TGGCGA...................................................................................................	23	1	9.00	0.00	9.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATCCAA-TGGCGA...................................................................................................	23	1	8.00	0.00	8.00	0.00	0.00
......................................................................TTCAGTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	8.00	0.00	8.00	0.00	0.00
..................................................................................................................................CGCATTGTGTGAGTTACTTTGTT...................................................	23	1	8.00	0.00	8.00	0.00	0.00
........................................................................AAGTAGTT-----------AATACAA-TGGCGA...................................................................................................	21	1	8.00	0.00	8.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGACGA...................................................................................................	23	1	8.00	0.00	8.00	0.00	0.00
......................................................................TTACGTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	7.00	0.00	6.00	1.00	0.00
......................................................................TTAAGTAGTT-----------CATACAA-TGGCGA...................................................................................................	23	1	7.00	0.00	7.00	0.00	0.00
......................................................................TTAAGTTGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	6.00	0.00	6.00	0.00	0.00
......................................................................TTAAGCAGTT-----------AATACAA-TGGCG....................................................................................................	22	1	6.00	0.00	6.00	0.00	0.00
.........................................................................AGTAGTT-----------AATACAA-TGGCGA...................................................................................................	20	1	6.00	0.00	6.00	0.00	0.00
......................................................................TAAAGTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	5.00	0.00	5.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGGGA...................................................................................................	23	1	5.00	0.00	5.00	0.00	0.00
......................................................................TTAAGTxxTT-----------AATACAA-TGGCGA...................................................................................................	21	1	5.00	0.00	5.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCGAC..................................................................................................	24	1	5.00	0.00	5.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGAG....................................................................................................	22	1	5.00	0.00	5.00	0.00	0.00
.........................................................................................................TTCGTATTCCAT-TGTACAT-----C.........................................................................	20	1	4.00	0.00	4.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TTGCG....................................................................................................	22	1	4.00	0.00	4.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCT....................................................................................................	22	1	4.00	0.00	4.00	0.00	0.00
......................................................................TTAAGTAGTT-----------xATACAA-TGGCGA...................................................................................................	22	1	4.00	0.00	4.00	0.00	0.00
......................................................................TTATGTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	4.00	0.00	4.00	0.00	0.00
......................................................................TTAAGTAGAT-----------AATACAA-TGGCGA...................................................................................................	23	1	4.00	0.00	4.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-AGGCGA...................................................................................................	23	1	4.00	0.00	4.00	0.00	0.00
......................................................................TTAAGTAGTT-----------ATTACAA-TGGCGA...................................................................................................	23	1	4.00	0.00	4.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TTGCGAT..................................................................................................	24	1	3.00	0.00	3.00	0.00	0.00
...................................................................................................................................GCATTGTGTGAGTTACTTTG.....................................................	20	1	3.00	0.00	3.00	0.00	0.00
......................................................................TTAAATAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	3.00	0.00	3.00	0.00	0.00
......................................................................TTTAGTAGTT-----------AATACAA-TGGCGA...................................................................................................	23	1	3.00	0.00	3.00	0.00	0.00
......................................................................TTAAGTAGTT-----------TATACAA-TGGCGAT..................................................................................................	24	1	3.00	0.00	3.00	0.00	0.00
......................................................................TTAAGTAGTT-----------AATACAA-TGGCGT...................................................................................................	23	1	3.00	0.00	3.00	0.00	0.00
......................................................................TTAAGTAGTT-----------ACTACAA-TGGCGA...................................................................................................	23	1	3.00	0.00	3.00	0.00	0.00
.......................................................................TAAGTAGTT-----------AATACAA-TGGC.....................................................................................................	20	1	3.00	0.00	3.00	0.00	0.00
..................................................................................................................................CGCATTGTGTGAGTTACTTTG.....................................................	21	1	3.00	0.00	3.00	0.00	0.00

droVir3

TGCCCAT---AAA-----------TGT----CTTGAAAAT-----------------------TTGTCATTTAAGTAGGT-----------CACACAA--TGCGATGCAAGAAA----AAA--CTC----GCCCTTGTATTAACTACTTAAGCGTTCAATTTTC-ATTGCAGC---A----AG---------------------

Size

Hit Count

Total Norm

V116
Male body

V053
Unknown

V047
Embryo

M027
Male body

M028
Head

droMoj3

TGTATAA---A-------------GTT----AAGTAAAAT-----------------------AACAAACTTAAGTTGAATATTATACATATATATAAAATGCATCTCGTAAGC--CATATA-TATGTATATAAATATATATCATAT-----CTATTGTTATTGCTGATCGAC---TGATTGA---------------------	Size	Hit Count	Total Norm	V110 Male body	V056 Unknown	V049 Head	V041 Embryo
.......................................................................................................................ATA-TATGTATAGAAATATATGT..............................................................	22	6	0.17	0.00	0.17	0.00	0.00
.....................................................................................................................ATATA-TATGTATAGAAAGATA.................................................................	21	11	0.09	0.09	0.00	0.00	0.00

droGri2

TGTAAAT---A-TTTATAATCACTGT-----ATTGAAAAT-----------------------TTAACACTTAAGTAGTT-----------GATACAA-GGGCGAGTTTCA-T---A-AAGT-AT-----CGCATTGTGTGACCTACTTGAATGAGAGATTTTTA--AGATAC---TG--TAA---------------------	Size	Hit Count	Total Norm	V109 Male body
......................................................................TTAAGTAGTT-----------GATACAA-GGGCGA...................................................................................................	23	1	2.00	2.00
......................................................................TTAAGTCGTT-----------GATACAA-GGGCGA...................................................................................................	23	1	1.00	1.00

Generated: 04/20/2012 at 05:22:07 EDT

dme-mir-1002

chr2L:13747609-13747697 -

Known_mirbase

antisense_to_intron

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

Visually pleasing best hits from LASTZ and MAF

Legend

Re-alignment after removal of non-confident orthologs

20-way Secondary Structure

Small RNA-seq read pileup