sblock216052- 12- and 20-way alignments

sblock216052	chr2L:12421882-12421990 -	Candidate
	[View on UCSC Genome Browser {Cornell Mirror}]	intron

Legend:

   mature strand at position 12421952-12421972
   mutations
   read mismatches
   coordinate mismatch (possible incorrect ortholog)

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

Species	Coordinate	Alignment
dm3	chr2L:12421867-12422005 -	CCATTTGGAATATTTATAAGCCCAGCGGCTAATTGAGTGAGAGGGAGAG---CAAGAGAGCGGTCA---------------GCTAG------------------------TgtgTgtgTgGGTTTgTgtgTgGg-----------------------------------------Tg------tgTgtgTgt-----------GC-------------------------------CGGCCGCCGTTTATTTGCCGCTTCCTCAAATCAT
droSim1	chr2L:12227297-12227427 -	CCATTTGGAATATTTATAAGCCCAGCGGCTAATTGAGTGAGAGGGAGAG---CAGGAGAGCGGTCA---------------GCTAG------------------------TCACTCACTCGGTTT-----------------------------------------------C--TC------ACTCACTCA-----------GC-------------------------------CGGCGGCCGTTTATTTGCCGCTTCCTCAAATCAT
droSec1	super_16:612338-612468 -	CCATTTGGAATATTTATAAGCCCGGCGGCTAATTGAGTGAGAGGGAGAG---CAAGAGAGCGGTCA---------------GCTAG------------------------TCACTCACTCGGTTT-----------------------------------------------C--TC------ACTCACTCA-----------GC-------------------------------CGGCGGCCGTTTATTTGCCGCTTCCTCAAATCAT
droYak2	chr2L:8858070-8858199 -	CCATTTGGAATATTTATAAACCCAGCGACTAATTGAGTGAGAGGGAGAG---CGAGAGAGCGGTCA---------------GCTAG------------------------TCACTCACTCGGTTT-----------------------------------------------C--TC------ACTCACTCA-----------CC-------------------------------CGACCGCCGTTTAT-TGCCGCTTCCTCAAATCAT
droEre2	Unknown	CCATTCGGAATATTTATAAAAGCAGCGACTAATTGAGTGAGAGGGAGAG---CGAGAGAGCGGTCA---------------GCTAG------------------------TCACTCACTCGGTTT-----------------------------------------------C--TC------ACTCACTCA-----------CT-------------------------------CGACCGCCGTTTATTTGCCGCTTCCTCAAATCAT
droAna3	Unknown	CCATTTAAAATATTTATAAACACAGCGACTAATTGAATGAGCGGGTGAG---TGAGAGTGTCGGCA---------------GTTGC------------------------TC------------------------------------------GTTGTACTCACAAGTACTC--ACTTTCACACTCATTG-----------------GAAGCGGTTCCCAGCTCGGTTTCGTTTGCGGCCGCCGTTTATTTGCCGCTTCCTCAAATCAT
dp4	Unknown	CCATTCG-AATGCATGTAAAGCCGGT------------------AAGAG---CAAGCGAGCGGTCAGCGTCAACGTCAGCG-----------------------------------------------------------------TCAGGCTAGCCACTCACTCAATCGCTC--TCCCTCAC--------------GCCC-------TC--T------CA-TTCGGTTTCGTT------TGCCGTTTATTTGCCGTTTCCTCAAATCAT
droPer1	Unknown	CCATTCG-AATGCATGTAAGCC-------------------GGTAAGAG---CAAGCGAGCGGTCAGCGTCAACGTCAGCG-----------------------------------------------------------------TCAGGCTAGCCACTCACTCAATCGCTC--TCCCTCAC--------------GCCC-------TC--T------CA-TTCGGTTTCGTT------TGCCGTTTATTTGCCGTTTCCTCAAATCAT
droWil1	Unknown	AAAT-----GTATTT--ATTTTTAACGACTAATTGAGTGACGAAAAGGGGGGC-AGATGGCAAAGA---------------GCTACAGTTGAGTGAATGAGTGATTCTTgTgTgggTgTgTTTTTGTgTTTgTgTTTgTgTgTGTgTgT-GTTAGTCACTCAATTT------AGGTG------AGAGACTCAATGTTGTCCCCTCCAACAAGTAGGTTTCA----------GTT------TG--CTTTATTTGCCGTTTCCTCAAATCAT
droVir3	Unknown	------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3	scaffold_6500:22602044-22602122 -	G-------------------------------------------------------------------------------------------------------------TCGCTCAATCTGTT---------------------------------------------------GCGCTCAT--------------TTC------ACTCAGT------GA-TTTCTGTTCGTT----CATTCTGTTTATTTGCCGTTTCCTCGACGCAT
droGri2	scaffold_15252:14983982-14984007 -	----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTTTATTTGTTCTTTCCTCAACACAT

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

Species	Coordinate	Lastz Id	Alignment
dm3	chr2L:12421867-12422005 -	NA	CCATTTGGA--------ATATTTATAAGCCCAG----CGGCTAATTGAGTGAGAGGGAG------------------AGCAAGAGAGC----------GGTCA-GCTAGTC-----ACT------CAC-------------------TCGGT---------------------------TTCTCACTCGCT----CACTCACTCA---------------------------------------------------------------------------------GCCG--GCCGCCGTTTATTTGCCGCTTCCTCAAATCAT
droSim1	chr2L:12227297-12227427 -	1	CCATTTGGA--------ATATTTATAAGCCCAG----CGGCTAATTGAGTGAGAGGGAG------------------AGCAGGAGAGC----------GGTCA-GCTAGTC-----ACT------CAC-------------------TCGGT---------------------------TTC--------T----CACTCACTCA---------------------------------------------------------------------------------GCCG--GCGGCCGTTTATTTGCCGCTTCCTCAAATCAT
droSec1	super_16:612338-612468 -	1	CCATTTGGA--------ATATTTATAAGCCCGG----CGGCTAATTGAGTGAGAGGGAG------------------AGCAAGAGAGC----------GGTCA-GCTAGTC-----ACT------CAC-------------------TCGGT---------------------------TTC--------T----CACTCACTCA---------------------------------------------------------------------------------GCCG--GCGGCCGTTTATTTGCCGCTTCCTCAAATCAT
droYak2	chr2L:8858070-8858199 -	1	CCATTTGGA--------ATATTTATAAACCCAG----CGACTAATTGAGTGAGAGGGAG------------------AGCGAGAGAGC----------GGTCA-GCTAGTC-----ACT------CAC-------------------TCGGT---------------------------TTC--------T----CACTCACTCA---------------------------------------------------------------------------------CCCG--ACCGCCGTTTAT-TGCCGCTTCCTCAAATCAT
droEre2	scaffold_4929:12994744-12994878 +	1	CCATTCGGA--------ATATTTATAAAAGCAG----CGACTAATTGAGTGAGAGGGAG------------------AGCGAGAGAGC----------GGTCA-GCTAGTC-----ACT------CAC-------------------TCGGT---------------------------TTC--------T----CACTCACTCACT-----------------------------------------------------------------CG------------ACCG--CCCGCCGTTTATTTGCCGCTTCCTCAAATCAT
droEug1	scf7180000409122:808456-808586 -	1	CCATCTAGA--------ATATTTATAAAACCAG----CGACTAATTGAGTGAGAGGGAG------------------AGTGAGAGAGC----------GGTCA-TTTAGTC-----ACT------CAC-------------------TCGGT---------------------------TTC--------T----CACTCACTCG---------------------------------------------------------------------------------CTTG--CTTTCCGTTTATTTGCCGCTTCCTCAAATCAT
droBia1	scf7180000302422:556733-556867 +	1	CCATTTAGAGTACGTGTATATTTATAAACACAG----CGACTAATTGAGTGAGAGGGAG------------------AGTGCGAGAGT----------GGCCC-GCGACTC-----ACT------CAG-------------------TCGGT---------------------------TTC--------C----CACTCACTC-------------------------------------------------------------------------------------G--CCTGCCGCTTATTTGCCGCTTCCTCAAATCAT
droTak1	scf7180000415865:175521-175648 +	1	CCATTTAGAATACATGTATATTTATAAACCCAC----CGACTAATTGAGTGAGAGGGAG------------------AGTGAGAGAGC----------AAT--------TC-----ACT------CAC-------------------TCGGC---------------------------TTC--------T----CAGTCACTC-------------------------------------------------------------------------------------G--CTTGCCGTTTATTTGCCGCTTCCTCAAATCAT
droEle1	scf7180000491028:2693496-2693615 +	1	CCATTTAGA--------ATATTTATAAGCCCAG----CGACTAATTGAGTGAG------------------------AGTGAGAGAGC----------GGTCA-G-TATTC-----ACT------CAC-------------------TCGGC---------------------------TGC--------T----CACTCACTC-------------------------------------------------------------------------------------G--CTTGCCGTTTATTTGCCGCTTCCTCAAATCAT
droRho1	scf7180000780043:277013-277139 -	2	CCATTTAGA--------ATATTTATAAACCCAG----CGACTAATTGAGTGAGAGGGAG------------------AGTGAGAGAGC----------GGTCA-GTTGTTC-----ACT------CAC-------------------TCGGC---------------------------TAC--------T----CACTCACTC-------------------------------------------------------------------------------------G--CTTGCCGTTTATTTGCCGCTTCCTCAAATTAT
droFic1	scf7180000454015:306275-306419 -	1	CCATTTGGA--------ATATTTATAAACCCAG----CGAATAATTGAGTGAGAGGGATAGGGAGTGTAAGAGCAAGAGCGAGAGAGC----------GGTCA-GCTATTC-----ACT------CAC-------------------TCATT---------------------------TAG--------C----CACTCATTC-------------------------------------------------------------------------------------G--CTTGCCGTTTATTTGCCGCTTCCTCAAATCAT
droKik1	scf7180000301476:521809-522009 -	1	CTATTTAGA--------ATATTTTTAAACCCAG----CGACTAATTGAGAGAGCGAGAG------------------TGTCA----CTCATTGAGGCCCCTCA-GT-------------------CACTCATTTA-------C----TCACTCACTCCCTCTCTTTTCCCCCAG------T--------CGCACCCTCT----CTTTCTCTGCTATAGCACTCTCTCTTTCTGAT------------------TCC-A---------TAGCCGGGTCTC----------G--TTCGCCGCTTATTTACCGCTTCCTCAAATCAT
droAna3	scaffold_12916:12976682-12976854 +	1	CCATTTAAA--------ATATTTATAAACACAG----CGACTAATTGAATGAGCGGGTG------------------AGTGAGAGTGT----------CGGCA-GTTGCTCGTTGTACTCACAAGTAC-------------------TCACT---------------------------TTC--------A----CACTCATTG-----------------------------------------G-----------AAGCGGTTCCCAGCTCGGTTTCGTTTGCGGCCGCCGTTGCCGTTTATTTGCCGCTTCCTCAAATCAT
droBip1	scf7180000396580:543946-544113 -	2	CCATTTAAA--------ATATTAATAAACACAG----CGACTAATTGAATGAGCGGGTG------------------AGTGAGAGTGT----------CGCCAAGTTGCTCGTTGTACTCGCAAGTAC-------------------TCACT---------------------------TTC--------A----CACTCATTG-----------------------------------------G-----------CAGCGGTTCCCAGCTCGGTTTCGTGTG----CT--GCCGCCGTTTATTTGCCGTTTCCTCAAATCAT
dp4	chr4_group3:5666738-5666907 +	2	CCGTTTAAT--------TTAGTCGAAGG--GAG----AGCCATATTCATTGAGAGGGAG------------------AGTGTGAGAGCAAGCGAGC--GGTCA-GC-GT---CAAC-GT------CAGCGTCAGGCTAGCCACTCACTCAATCGCTCTCCC-------------------T--------CACGCCCTCT----CATT-----------------------------------------------------------------CGGTTTC----------G--TTTGCCGTTTATTTGCCGTTTCCTCAAATCAT
droPer1	super_1:7158003-7158172 +	2	CCGTTTAAT--------TTAGTCGAAGG--GAG----AGCCATATTCATTGAGAGGGAG------------------AGTGTGAGAGCAAGCGAGC--GGTCA-GC-GT---CAAC-GT------CAGCGTCAGGCTAGCCACTCACTCAATCGCTCTCCC-------------------T--------CACGCCCTCT----CATT-----------------------------------------------------------------CGGTTTC----------G--TTTGCCGTTTATTTGCCGTTTCCTCAAATCAT
droWil1	scaffold_180708:10168062-10168287 -	2	AAATGAAAT--------GTATTTATTTT--TAACGCTCGACTAATTGAGTGACGAAAAG------------------GGGGG---CAGATGGCAAA--GAGCT-AC-AG---TTGA-GT------GAATGAGTGATTCTTCTCTCCCTCTCTTTTTGTCTT-------------------T--------CTCTTTCTCT----CTGTCTCTGTTAGT-CACTCAATTTAGGTGAGAGACTCAATGTTGTCCCCTCCAA---------CAAGTAGGTTTCA---------G--TTTG--CTTTATTTGCCGTTTCCTCAAATCAT
droVir3	Unknown	NA	------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3	scaffold_6500:22602044-22602122 -	1	G------------------------------------------------------------------------------------------------------------TC-----GCT------CAA-------------------TCTGT----TGCGCTCATTTCACTCAGTGATTT----------C----TGTTCGTT-----------------------------------------------------------------------------------------CATTCTGTTTATTTGCCGTTTCCTCGACGCAT
droGri2	scaffold_15252:14983982-14984007 -	1	----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTTTATTTGTTCTTTCCTCAACACAT

[View All Possible Orthologs]

Original 12-way multiz alignment with reads super-imposed

Species

Alignment

dm3

CCATTTGGAATATTTATAAGCCCAGCGGCTAATTGAGTGAGAGGGAGAG---CAAGAGAGCGGTCA---------------GCTAG------------------------TgtgTgtgTgGGTTTgTgtgTgGg-----------------------------------------Tg------tgTgtgTgt-----------GC-------------------------------CGGCCGCCGTTTATTTGCCGCTTCCTCAAATCAT

Size

Hit Count

Total Norm

droSim1

CCATTTGGAATATTTATAAGCCCAGCGGCTAATTGAGTGAGAGGGAGAG---CAGGAGAGCGGTCA---------------GCTAG------------------------TCACTCACTCGGTTT-----------------------------------------------C--TC------ACTCACTCA-----------GC-------------------------------CGGCGGCCGTTTATTTGCCGCTTCCTCAAATCAT	Size	Hit Count	Total Norm	V044 Embryo	M023 Head	M024 Male body	M025 Embryo
..............................................GAG---CAGGAGATCCGTCA---------------GCT..........................................................................................................................................................................................	20	1	3.00	1.00	0.00	0.00	2.00
................................................G---CAGGAGATCCGTCA---------------GCT..........................................................................................................................................................................................	18	1	2.00	0.00	0.00	0.00	2.00
.........................................................................................................................GTTT-----------------------------------------------C--GG------ACTCACTCA-----------GC-------------------------------..................................	18	1	2.00	0.00	0.00	0.00	2.00
........................................................................................................................................................................................CTCAAGCA-----------GC-------------------------------CGGCGGCC..........................	18	1	1.00	0.00	0.00	0.00	1.00
...................................................................................................................CACTCGGTTT-----------------------------------------------C--TC------ACTCACT................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
..............................................GAG---CAGGAGATCCGTCA---------------GC...........................................................................................................................................................................................	19	1	1.00	1.00	0.00	0.00	0.00

droSec1

CCATTTGGAATATTTATAAGCCCGGCGGCTAATTGAGTGAGAGGGAGAG---CAAGAGAGCGGTCA---------------GCTAG------------------------TCACTCACTCGGTTT-----------------------------------------------C--TC------ACTCACTCA-----------GC-------------------------------CGGCGGCCGTTTATTTGCCGCTTCCTCAAATCAT	Size	Hit Count	Total Norm	V113 Male body	V114 Embryo	V115 Head
.......................................AGAGTGAGAG---GAAGAGAGC.................................................................................................................................................................................................................	19	1	1.00	0.00	1.00	0.00
......................................GAGTGGGAGAG---CAAGAAA...................................................................................................................................................................................................................	18	1	1.00	0.00	0.00	1.00
...............................ATTGAGTGAGAGGGAGAG---..........................................................................................................................................................................................................................	18	1	1.00	0.00	0.00	1.00
...............................................AG---CAAGAGAGCGGTCA---------------GCTAG------------------------TCACTC..........................................................................................................................................................	27	1	1.00	0.00	1.00	0.00
...............................ATTGAGTGAGxGGGAGAG---A.........................................................................................................................................................................................................................	18	1	1.00	0.00	1.00	0.00
..............................AATTGAGTGAGAGGGAGAG---T.........................................................................................................................................................................................................................	20	1	1.00	1.00	0.00	0.00
..............................AATTGAGTGAGAGGGAGAG---CA........................................................................................................................................................................................................................	21	1	1.00	1.00	0.00	0.00
.............................................AGAG---CAAGAGAGCGGAGA---------------GCTA.........................................................................................................................................................................................	22	1	1.00	0.00	0.00	1.00

droYak2

CCATTTGGAATATTTATAAACCCAGCGACTAATTGAGTGAGAGGGAGAG---CGAGAGAGCGGTCA---------------GCTAG------------------------TCACTCACTCGGTTT-----------------------------------------------C--TC------ACTCACTCA-----------CC-------------------------------CGACCGCCGTTTAT-TGCCGCTTCCTCAAATCAT	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
.....................................TGTGTGGGAGAG---CGAGAGAGC.................................................................................................................................................................................................................	21	1	9.00	9.00	0.00	0.00	0.00	0.00
......................................GAGAGAGAGAG---AGAGAGA...................................................................................................................................................................................................................	18	6	0.50	0.00	0.00	0.50	0.00	0.00
...................................ATTGAGAGGGAGAG---AGAGAGA...................................................................................................................................................................................................................	21	1	2.00	1.00	0.00	1.00	0.00	0.00
.....................................TGTGTGGGAGAG---CGAGAGA...................................................................................................................................................................................................................	19	1	2.00	2.00	0.00	0.00	0.00	0.00
.......................................AGAGGAAGAG---GGAGAGA...................................................................................................................................................................................................................	17	1	1.00	0.00	0.00	0.00	1.00	0.00
......................................GAGAGGGAGAG---CGAGAGA...................................................................................................................................................................................................................	18	2	0.50	0.00	0.00	0.50	0.00	0.00
......................................GAGAGGGAGAG---AGAGAGAGA.................................................................................................................................................................................................................	20	2	0.50	0.00	0.00	0.50	0.00	0.00
...................................................................................TAG------------------------TCATTCxCTCGGTTT-----------------------------------------------C--T..............................................................................................	19	1	1.00	1.00	0.00	0.00	0.00	0.00
.......................................TGTGGGAGAG---CGAGAGAGCG................................................................................................................................................................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
.....................................TGTGTGGGAGAG---CGAGAGAG..................................................................................................................................................................................................................	20	1	1.00	1.00	0.00	0.00	0.00	0.00
.......................................TGTGGGAGAG---CGAGAGAG..................................................................................................................................................................................................................	18	1	1.00	1.00	0.00	0.00	0.00	0.00
.....................................TGTGTGGGAGAG---CGAGAGAGCG................................................................................................................................................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
...................................AGAGAGAGGGAGAG---AGAG......................................................................................................................................................................................................................	18	5	0.20	0.00	0.00	0.20	0.00	0.00
.......................................AGAGGGAGAG---AGAGAGAG..................................................................................................................................................................................................................	18	3	0.33	0.33	0.00	0.00	0.00	0.00
...................................ATTGAGAGGGAGAG---AGAGAGAG..................................................................................................................................................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
....................................AAGAGAGGGAGAG---CGAGAGAGC.................................................................................................................................................................................................................	22	1	1.00	0.00	0.00	1.00	0.00	0.00
..................................GATTGAGAGGGAGAG---AGAGA.....................................................................................................................................................................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
.......................................AGAAAGAGAG---CGAGAGAGC.................................................................................................................................................................................................................	19	1	1.00	0.00	0.00	0.00	1.00	0.00
......................................GAGAGAGAGAA---CGAGAGAGC.................................................................................................................................................................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
..........................GACAAATTGAGTTAGAGGGA................................................................................................................................................................................................................................	20	1	1.00	0.00	0.00	1.00	0.00	0.00
........................................GTGGGAGAG---TGAGAGAGC.................................................................................................................................................................................................................	18	1	1.00	1.00	0.00	0.00	0.00	0.00

droEre2

CCATTCGGAATATTTATAAAAGCAGCGACTAATTGAGTGAGAGGGAGAG---CGAGAGAGCGGTCA---------------GCTAG------------------------TCACTCACTCGGTTT-----------------------------------------------C--TC------ACTCACTCA-----------CT-------------------------------CGACCGCCGTTTATTTGCCGCTTCCTCAAATCAT	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
......................................GAGAGAGAGAG---AGAGAGA...................................................................................................................................................................................................................	18	4	2.75	0.50	0.00	2.25	0.00
........................................GAGGGAGAG---AGAGAGAGA.................................................................................................................................................................................................................	18	1	1.00	0.00	0.00	1.00	0.00
.......................................AGAGGCAGAG---AGAGAGAG..................................................................................................................................................................................................................	18	2	0.50	0.00	0.00	0.00	0.50
......................................GAGAGTGAGAG---AGAGAGAG..................................................................................................................................................................................................................	19	1	1.00	0.00	0.00	1.00	0.00
..................................GAGGGAGCGGGAGAG---CGA.......................................................................................................................................................................................................................	18	1	1.00	0.00	0.00	0.00	1.00
......................................GAGAGAGAGAG---GGAGAGA...................................................................................................................................................................................................................	18	2	0.50	0.00	0.00	0.00	0.50
...................................AGTGAGCGGGAGAG---AGAGA.....................................................................................................................................................................................................................	19	1	1.00	0.00	0.00	1.00	0.00
......................................GAGAGAGAGAG---CGAGAGA...................................................................................................................................................................................................................	18	4	0.25	0.00	0.00	0.00	0.25
..................................GAGAGAGAGAGAGAG---CGA.......................................................................................................................................................................................................................	18	2	0.50	0.00	0.00	0.50	0.00
......................................GAGAGAGAGAG---AGAGAGAGCG................................................................................................................................................................................................................	21	2	0.50	0.00	0.00	0.50	0.00
..................................GAGTGAGAGAGAGAG---AGA.......................................................................................................................................................................................................................	18	1	1.00	0.00	0.00	1.00	0.00
.....................................................................................................................CTCGGCTT-----------------------------------------------C--TC------ACTCACTCA-----------CT-------------------------------..................................	22	1	1.00	1.00	0.00	0.00	0.00
......................................GAGAGAGAGAG---AGAGAGAGC.................................................................................................................................................................................................................	20	2	0.50	0.00	0.00	0.00	0.50
..................................GAGTGAGCGGGAGAG---AGAG......................................................................................................................................................................................................................	19	1	1.00	0.00	0.00	0.00	1.00
.......................................ACAGGGAGAG---CGAAAGAG..................................................................................................................................................................................................................	18	1	1.00	0.00	1.00	0.00	0.00
......................................GAGAGCGAGAG---TGAGAGAG..................................................................................................................................................................................................................	19	1	1.00	0.00	0.00	1.00	0.00
......................................GAGAGGGAGAG---TGTGAGAG..................................................................................................................................................................................................................	19	1	1.00	0.00	0.00	1.00	0.00

droAna3

CCATTTAAAATATTTATAAACACAGCGACTAATTGAATGAGCGGGTGAG---TGAGAGTGTCGGCA---------------GTTGC------------------------TC------------------------------------------GTTGTACTCACAAGTACTC--ACTTTCACACTCATTG-----------------GAAGCGGTTCCCAGCTCGGTTTCGTTTGCGGCCGCCGTTTATTTGCCGCTTCCTCAAATCAT	Size	Hit Count	Total Norm	V105 Male body	V106 Head	V055 Unknown	V039 Embryo
......................................GAGAGGGTGAG---TGAGAGT...................................................................................................................................................................................................................	18	1	2.00	1.00	1.00	0.00	0.00
..............................................................................................................................................................................................................................................CCCGCCGTTTGTTTGCCG..............	18	1	1.00	0.00	1.00	0.00	0.00
................................................G---TGAGAGTGTCGGCA---------------GTTGC------------------------................................................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
...........................................................................................................................................................................................................................CAGCTCGGTTTCGTTTGCGGC..............................	21	1	1.00	1.00	0.00	0.00	0.00
..................AACACAGCGACxACTTGAA.........................................................................................................................................................................................................................................	18	1	1.00	0.00	0.00	1.00	0.00
.......................................................................................................................................................................................ACTCATTG-----------------GAAGCGGTTCCC..................................................	20	1	1.00	0.00	1.00	0.00	0.00

dp4

CCATTCG-AATGCATGTAAAGCCGGT------------------AAGAG---CAAGCGAGCGGTCAGCGTCAACGTCAGCG-----------------------------------------------------------------TCAGGCTAGCCACTCACTCAATCGCTC--TCCCTCAC--------------GCCC-------TC--T------CA-TTCGGTTTCGTT------TGCCGTTTATTTGCCGTTTCCTCAAATCAT	Size	Hit Count	Total Norm	V112 Male body	V043 Embryo	V051 Head	M022 Male body
................................................................CAGCGTCAGCGTCAGCT-----------------------------------------------------------------TCA.........................................................................................................................	20	1	1.00	1.00	0.00	0.00	0.00
..............................................................GTCAGCGTCAACGTCAGCG-----------------------------------------------------------------T...........................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
..................................................................................................................................................................................................................................GTTTCGTT------TGACGTTTAGT...................	19	1	1.00	0.00	0.00	0.00	1.00
............................................................CAGTCAGCGTCAACGGCAGCG-----------------------------------------------------------------TCA.........................................................................................................................	24	1	1.00	0.00	0.00	1.00	0.00

droPer1

CCATTCG-AATGCATGTAAGCC-------------------GGTAAGAG---CAAGCGAGCGGTCAGCGTCAACGTCAGCG-----------------------------------------------------------------TCAGGCTAGCCACTCACTCAATCGCTC--TCCCTCAC--------------GCCC-------TC--T------CA-TTCGGTTTCGTT------TGCCGTTTATTTGCCGTTTCCTCAAATCAT	Size	Hit Count	Total Norm	V111 Male body	V042 Embryo	V050 Head	V057 Head	M021 Embryo
..............................................................GTCAGCGTCAACGTCAGC..............................................................................................................................................................................................	18	1	2.00	0.00	1.00	0.00	0.00	1.00
............................................................CAGTCAGCGTCAACGCCAGCG-----------------------------------------------------------------TCAGGC......................................................................................................................	27	1	2.00	0.00	0.00	0.00	0.00	2.00
..................AGGC-------------------GGTAAGAG---CAGGCG....................................................................................................................................................................................................................	18	1	1.00	1.00	0.00	0.00	0.00	0.00
.................................................................AGAGTCAACGTCAGTG-----------------------------------------------------------------TCAG........................................................................................................................	20	1	1.00	0.00	0.00	0.00	1.00	0.00

droWil1

AAAT-----GTATTT--ATTTTTAACGACTAATTGAGTGACGAAAAGGGGGGC-AGATGGCAAAGA---------------GCTACAGTTGAGTGAATGAGTGATTCTTgTgTgggTgTgTTTTTGTgTTTgTgTTTgTgTgTGTgTgT-GTTAGTCACTCAATTT------AGGTG------AGAGACTCAATGTTGTCCCCTCCAACAAGTAGGTTTCA----------GTT------TG--CTTTATTTGCCGTTTCCTCAAATCAT	Size	Hit Count	Total Norm	V117 Male body	V118 Embryo	V119 Head	M020 Head
..............................................................................................................................TATGTGTGTTTGTGTGTGTGT...........................................................................................................................	21	12	1.25	0.00	0.33	0.92	0.00
..................................................................................................................................TGTGTGTGTGTGTGTGTG..........................................................................................................................	18	38	0.39	0.00	0.16	0.24	0.00
....................................................................................................................................TGTGTGTGTGTGTGTGT-G.......................................................................................................................	18	38	0.39	0.00	0.16	0.24	0.00
..................................................................................................................................TGTGTGTGTGTGTGTGTGT-GT......................................................................................................................	21	26	0.42	0.00	0.23	0.19	0.00
..................................................................................................................................TGTGTGTGTGTGTGTGTGT-G.......................................................................................................................	20	30	0.37	0.00	0.07	0.30	0.00
.............................................................................................................................GTGTTTGTGTGTGCGTGT...............................................................................................................................	18	21	0.48	0.10	0.33	0.05	0.00
...................................................................................................................................GTGTTTGTGTGTGCGTGT-........................................................................................................................	18	21	0.48	0.10	0.33	0.05	0.00
............................................................................................................................TGTGTATGTGTGTGTGTGTGTG............................................................................................................................	22	24	0.42	0.00	0.00	0.42	0.00
..................................................................................................................................TGTGTATGTGTGTGTGTGT-GTG.....................................................................................................................	22	24	0.42	0.00	0.00	0.42	0.00
...................................................................................................................................GTGTGCGTGTGTGTGTGT-........................................................................................................................	18	43	0.21	0.00	0.19	0.02	0.00
...................................................................................................................................GTGTGTGTGTGTGTGTGT-........................................................................................................................	18	41	0.22	0.07	0.07	0.07	0.00
..................................................................................................................................TATGTGTGTGTGTGTGTGT-G.......................................................................................................................	20	38	0.24	0.00	0.00	0.24	0.00
................................................................................................................................TATGTGTGTGTGTGTGTGTG..........................................................................................................................	20	38	0.24	0.00	0.00	0.24	0.00
.....................................................................................................................................GTGTGTGTGTGTGTGT-GT......................................................................................................................	18	41	0.22	0.07	0.07	0.07	0.00
.....................................................................................................................................GTGTGCGTGTGTGTGT-GT......................................................................................................................	18	43	0.21	0.00	0.19	0.02	0.00
..............................................................................................................................TATGTGTGTTTGTGTGTGTGTG..........................................................................................................................	22	10	0.80	0.00	0.00	0.80	0.00
..................................................................................................................................TGTGTATGTGTGTGTGTGT-G.......................................................................................................................	20	33	0.24	0.00	0.03	0.21	0.00
............................................................................................................................TGTGTATGTGTGTGTGTGTG..............................................................................................................................	20	33	0.24	0.00	0.03	0.21	0.00
....................................................................................................................................TGTCTGTGTGTGTGTGT-GC......................................................................................................................	19	18	0.44	0.00	0.39	0.06	0.00
............................................................................................................................TGTGTATGTGTGTGTGTGTGT.............................................................................................................................	21	29	0.21	0.00	0.07	0.14	0.00
..................................................................................................................................TGTGTATGTGTGTGTGTGT-GT......................................................................................................................	21	29	0.21	0.00	0.07	0.14	0.00
...............................................................................................................................GTTTGTGTGTATGTGTGTGT...........................................................................................................................	20	12	0.42	0.25	0.17	0.00	0.00
..................................................................................................................................TATGTGTGTGTGTGTGTG..........................................................................................................................	18	49	0.10	0.00	0.02	0.08	0.00
..................................................................................................................................TGCGTCTGTGTGTGTGTGT-........................................................................................................................	19	17	0.29	0.00	0.29	0.00	0.00
....................................................................................................................................TGTGTGTGTGTGTGTGT-GT......................................................................................................................	19	35	0.14	0.03	0.06	0.06	0.00
................................................................................................................................TATGTGTGTGTGTGTGTGTGT-G.......................................................................................................................	22	26	0.19	0.00	0.04	0.15	0.00
.............................................................................................................................GTATGTGTGTTTGTGTGTGTG............................................................................................................................	21	9	0.56	0.11	0.00	0.44	0.00
..................................................................................................................................TGTGTGTGTGTGTGTGTGT-........................................................................................................................	19	35	0.14	0.03	0.06	0.06	0.00
................................................................................................................................TATGTGTGTGTGTGTGTG............................................................................................................................	18	49	0.10	0.00	0.02	0.08	0.00
......................................................................................................................................TATGTGTGTGTGTGT-GTG.....................................................................................................................	18	49	0.10	0.00	0.02	0.08	0.00
....................................................................................................................................TATGTGTGTGTGTGTGT-G.......................................................................................................................	18	49	0.10	0.00	0.02	0.08	0.00
..................................................................................................................................TGTGTATGTGTGTGTGTG..........................................................................................................................	18	41	0.10	0.00	0.00	0.10	0.00
....................................................................................................................................TGTGTATGTGTGTGTGT-G.......................................................................................................................	18	41	0.10	0.00	0.00	0.10	0.00
..............................................................................................................................TGTATGTGTGTGTGTGTGTG............................................................................................................................	20	35	0.11	0.00	0.09	0.03	0.00
....................................................................................................................................TGTATGTGTGTGTGTGT-G.......................................................................................................................	18	44	0.09	0.00	0.00	0.09	0.00
....................................................................................................................................TGTATGTGTGTGTGTGT-GTG.....................................................................................................................	20	35	0.11	0.00	0.09	0.03	0.00
..................................................................................................................................TGTATGTGTGTGTGTGTG..........................................................................................................................	18	44	0.09	0.00	0.00	0.09	0.00
..................................................................................................................................TGTATGTGTGTGTGTGTGT-G.......................................................................................................................	20	35	0.11	0.00	0.09	0.03	0.00
..............................................................................................................................TGTATGTGTGTGTGTGTG..............................................................................................................................	18	44	0.09	0.00	0.00	0.09	0.00
...................................................................................................................................GTGTGTGTGTGTGTGTGT-GT......................................................................................................................	20	30	0.13	0.10	0.03	0.00	0.00
....................................................................................................................................TGTGTGTGTGTGTGTGT-GTGAG...................................................................................................................	22	23	0.17	0.00	0.04	0.13	0.00
............................................................................................................................TGTGTATGTGTGTGTGTG................................................................................................................................	18	41	0.10	0.00	0.00	0.10	0.00
..............................................................................................................................TATGTGTGTTTGTGTGTGTG............................................................................................................................	20	14	0.29	0.00	0.07	0.21	0.00
..................................................................................................................................TGTGTGTGTGTGTGTGTGT-GC......................................................................................................................	21	31	0.13	0.00	0.03	0.10	0.00
......................................................................................................................................TGTGTGTGTGTGTGT-GTCA....................................................................................................................	19	21	0.14	0.00	0.00	0.14	0.00
.................................................................................................................................GTGTGTATGTGTGTGTGTGT-........................................................................................................................	20	32	0.09	0.06	0.00	0.03	0.00
...................................................................................................................................GTGTTTGTGTGTGCGTGT-T.......................................................................................................................	19	4	0.75	0.25	0.50	0.00	0.00
..................................................................................................................................TGTGTGTGTGTGTGTGTGA-........................................................................................................................	19	40	0.08	0.00	0.03	0.05	0.00
..........................................................................................................................................TGTGTGTGTGT-GTGTGTCA................................................................................................................	19	21	0.14	0.00	0.00	0.14	0.00
...............................................................................................................................GTTTGTGTGTGTGCGTGT.............................................................................................................................	18	20	0.15	0.10	0.05	0.00	0.00
..............................................................................................................................TGCCTGTGTTTGTGTGTGTGTG..........................................................................................................................	22	2	1.50	0.00	0.50	1.00	0.00
.....................................................................................................................................GTATGTGTGTGTGTGT-GT......................................................................................................................	18	46	0.07	0.02	0.02	0.02	0.00
.....................................................................................................................................GTTTGTGTGTGTGCGT-GT......................................................................................................................	18	20	0.15	0.10	0.05	0.00	0.00
.....................................................................................................................................GTTTGTATGTGTGTGT-GT......................................................................................................................	18	17	0.18	0.00	0.18	0.00	0.00
................................................................................................................................TATGTGTGTGTGTGTGTGT...........................................................................................................................	19	43	0.07	0.00	0.02	0.05	0.00
....................................................................................................................................TGTGTGTGTGTGTGTGT-GA......................................................................................................................	19	40	0.08	0.00	0.03	0.05	0.00
..................................................................................................................................TGTGTGTGTGTGTGTGTGT-GA......................................................................................................................	21	32	0.09	0.00	0.03	0.06	0.00
...............................................................................................................................GTATGTGTGTGTGTGTGT.............................................................................................................................	18	46	0.07	0.02	0.02	0.02	0.00
..................................................................................................................................TATGTGTGTGTGTGTGTGT-........................................................................................................................	19	43	0.07	0.00	0.02	0.05	0.00
...............................................................................................................................GTTTGTATGTGTGTGTGT.............................................................................................................................	18	17	0.18	0.00	0.18	0.00	0.00
.............................................................................................................................GTATGTGTGTTTGTGTGTGTGT...........................................................................................................................	22	9	0.33	0.00	0.33	0.00	0.00
....................................................................................................................................TGTGTGTGTGTGTGTGT-GTGA....................................................................................................................	21	32	0.09	0.00	0.03	0.06	0.00
...................................................................................................................................GTATGTGTGTGTGTGTGT-........................................................................................................................	18	46	0.07	0.02	0.02	0.02	0.00
.............................................................................................................................GTGTTTGTGTATGTGTGT...............................................................................................................................	18	18	0.17	0.06	0.11	0.00	0.00
....................................................................................................................................TGTATGCGTGTGTGTGT-G.......................................................................................................................	18	17	0.18	0.00	0.18	0.00	0.00
....................................................................................................................................TATGTGTGTGTGTGTGT-GT......................................................................................................................	19	43	0.07	0.00	0.02	0.05	0.00
....................................................................................................................................TGTTTTAGTGTGTGTGT-G.......................................................................................................................	18	4	0.75	0.00	0.75	0.00	0.00
..................................................................................................................................TGTTTTAGTGTGTGTGTG..........................................................................................................................	18	4	0.75	0.00	0.75	0.00	0.00
......................................................................................................................................TGTGTGTGTGTGTGT-GTGA....................................................................................................................	19	40	0.08	0.00	0.03	0.05	0.00
....................................................................................................................................TATATGTGTGTGTGTGT-GT......................................................................................................................	19	21	0.14	0.05	0.00	0.10	0.00
.........................................................................................................................................GTGTGTGAGTGT-GTTTGT..................................................................................................................	18	20	0.15	0.05	0.10	0.00	0.00
...................................................................................................................................GTGTTTGTGTATGTGTGT-........................................................................................................................	18	18	0.17	0.06	0.11	0.00	0.00
...................................................................................................................................GTGTGTATGTGTGTGTGT-GT......................................................................................................................	20	32	0.09	0.06	0.00	0.03	0.00

droVir3

------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Size

Hit Count

Total Norm

V116
Male body

V053
Unknown

V047
Embryo

M027
Male body

M028
Head

droMoj3

G-------------------------------------------------------------------------------------------------------------TCGCTCAATCTGTT---------------------------------------------------GCGCTCAT--------------TTC------ACTCAGT------GA-TTTCTGTTCGTT----CATTCTGTTTATTTGCCGTTTCCTCGACGCAT	Size	Hit Count	Total Norm	V110 Male body	V056 Unknown	V049 Head	V041 Embryo
.................................................................................................................................................................................................................................................TCTGTTTATTTGCCGTTTCCTCGAC....	25	1	1.00	1.00	0.00	0.00	0.00

droGri2

Size

Hit Count

Total Norm

V109
Male body

12-way Secondary Structure

	dm3	droSim1	droSec1	droYak2	droEre2	droAna3	dp4	droPer1	droWil1	droVir3	droMoj3	droGri2
RNAfold Image										None
UNAFold Image										None

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																		None
UNAFold Image																		None