sblock109902- 12- and 20-way alignments

sblock109902	chr3L:21200899-21201043 +	Candidate
	[View on UCSC Genome Browser {Cornell Mirror}]	three_prime_UTR

Legend:

   mature strand at position 21200978-21200999
   star strand at position 21200911-21200931
   mutations
   read mismatches
   coordinate mismatch (possible incorrect ortholog)

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

Species	Coordinate	Alignment
dm3	chr3L:21200884-21201058 +	TGCACTTAAAACATATTTCTAGTCTCCTAAGAGTCTGTCGTTGCTCCTATTATTTAGTTTTTAACTACGCAAGC----------TT---------------------TCTTATTAACTAAAAACATGAGCTTCGG-CATTCTTTTAGGGAATTAGCAATATTTAGTAGAGTAAAGACTTGCAGTTTGCAAAATAATATACATA---AGTA
droSim1	chr3L:20558975-20559146 +	TGCACTTAAAACATATTTCTAGTTTCCTAAAAGTCTGTCGTTGCTCCTATTATTTAGTTTTTAACTACGCAAGC----------TT---------------------TCTTATTAACTAAAAACATGAGCATCGGACATTCTTTTAGGGAATTAGTAATATTTGGTAGAGTAAAGACTTGCAGTTTGCACATTAA----TATA---AGTA
droSec1	super_11:1154364-1154534 +	TGCACTTAAAACATATTT-TAGTTTCCTAAAAGTCTGTCGTTGCTCCTATTATTTAGTTTTTAACTACGCAAGC----------TT---------------------TCTTATTAACTAAAAATATGAGCTTCGGACATTCTTTTAGGGAATTAGTAATATTTGGTAGAGTAAAGACTTGCAGTTTGCACATATA----TATA---AGTA
droYak2	chr3L:19324761-19324962 -	TGCACTTAAAACATATTCTTAGTTCTCTAAAAGACTGTCGTTACTCTTTTTTTTTAGTT-ATAACTACGCAGGCTTTGGGAAACGTTTAAATTCGAAAGGCTAAAAATCGAATTAACTAAAATCATGAGTTTCG-ACATTCTTTTGTTGAATTAGTAATATTTACTAGAGTAAAGACTTGCAGTTTGCACATTTA---ATATA---AGTA
droEre2	scaffold_4784:20885185-20885365 +	TGCACTTAACGCATATTCCTAGTTC-CCAAAAGATCGTCGTTGCTCTT---TTTTAGTT-ATAACTACGCAGGATTAGGTGAGCTTT-CAATCTGAAAG----------------GCTAAAAATCTGAGTTTCG-ACACTCTTTTGTTGAATTAGTAATATTTTGTAGAGTAAAGACTTGCAGTTTGCACATTTA---TTATA---AGTA
droAna3	scaffold_13337:8498341-8498381 -	GCGAAGAAACCCACTTTGTTATAT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTTTACATATCCGATT
dp4	chrXR_group6:12571870-12571883 +	cgtacataatacat----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1	super_33:592822-592834 +	cgtacataataca-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1	Unknown	------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3	Unknown	TAGACTTGAATTATATTTGTAATT-----------------------------------------------------------------------------------------TAGTTAATAATATATACTCCAGACT--CTT---------CGATAATATTTACT---ATGAAGGCTAGCATGTAGCCCTTT-------------ACTA
droMoj3	Unknown	------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2	scaffold_15110:12063269-12063346 -	TGAGCTTTAAGCTC-------------------------------------------------------------------------------------------------------------------------------TTCAAGAAGATGAGCCAGT-GTTGCAAAGAAAACTGCCCCGATCTAAAAACATA--TTCATG--TCATA

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

Species	Coordinate	Lastz Id	Alignment
dm3	chr3L:21200884-21201058 +	NA	TGCACTTAAAACATATT----TCTAGT----CTCCTAAGAGTCT----GTCGTTGCTCCT--------------AT---T-------------A--------TTTA------------------------GTTT--TTAA---------------CTACGCA---------------------------------------------A-----------GCT---------------------TTCTTATT-AACTAAAAACAT------------------------GAGCTTC-------------------------------------------------------------GGCATTCTTTTAGGGAATTAGCAATATTTAGTAGAGTAAAGACTTGCAGTTTGC--------------------------------------------AAA----------------------ATAATATACATAAGTA
droSim1	chr3L:20558975-20559146 +	298	TGCACTTAAAACATATT----TCTAGT----TTCCTAAAAGTCT----GTCGTTGCTCCT--------------AT---T-------------A--------TTTA------------------------GTTT--TTAA---------------CTACGCA---------------------------------------------A-----------GCT---------------------TTCTTATT-AACTAAAAACAT------------------------GAGCATCG------------------------------------------------------------GACATTCTTTTAGGGAATTAGTAATATTTGGTAGAGTAAAGACTTGCAGTTTGC--------------------------------------------ACA----------------------TT----AATATAAGTA
droSec1	super_11:1154364-1154534 +	149	TGCACTTAAAACATATT----T-TAGT----TTCCTAAAAGTCT----GTCGTTGCTCCT--------------AT---T-------------A--------TTTA------------------------GTTT--TTAA---------------CTACGCA---------------------------------------------A-----------GCT---------------------TTCTTATT-AACTAAAAATAT------------------------GAGCTTCG------------------------------------------------------------GACATTCTTTTAGGGAATTAGTAATATTTGGTAGAGTAAAGACTTGCAGTTTGC--------------------------------------------ACA----------------------TA----TATATAAGTA
droYak2	chr3L:19324761-19324962 -	5272	TGCACTTAAAACATATT----CTTAGT----TCTCTAAAAGACT----GTCGTTACTCTT--------------TT---T-------------T--------TTTA------------------------GTT---ATAA---------------CTACGCAGGCTTTGGGA-----------------------------------A-----------ACGTTTAAATTCGAAAGGCTAAAAATCGAATT-AACTAAAATCAT------------------------GAGTTTC-------------------------------------------------------------GACATTCTTTTGTTGAATTAGTAATATTTACTAGAGTAAAGACTTGCAGTTTGC--------------------------------------------ACA----------------------TT---TAATATAAGTA
droEre2	scaffold_4784:20885185-20885365 +	474	TGCACTTAACGCATATT----CCTAGT----T-CCCAAAAGATC----GTCGTTGCTCTT---------------------------------T--------TTTA------------------------GTT---ATAA---------------CTACGCAGGATTAGGTG-----------------------------------A-----------GCTTTC-AATCTGAA----------------A-GGCTAAAAATCT------------------------GAGTTTC-------------------------------------------------------------GACACTCTTTTGTTGAATTAGTAATATTTTGTAGAGTAAAGACTTGCAGTTTGC--------------------------------------------ACA----------------------TT---TATTATAAGTA
droEug1	scf7180000408013:19257-19432 -	2238	GGCACTTGACTATAGCG----TTTCTTCTTGTTTATATATGT------TTCCTAGCTTTT--------------T----A-------------CTT------TTGC------A--TGGGAACTACTATTA-------AGATTATTCCT---------------------------------------------------------------------------------------------------------------AATCC------------------------GTAAATCGG--------------TAA-----------------------------------AGT----------TTTTAAGAGAAA------------GTTTAGTCAGT------A------ATATTTCGCAAAATAACACTTGTTTGA-----------------ACC----------------------TGGATTCGTATATATT
droBia1	scf7180000302193:4832562-4832712 -	4026	CA--CTTAAAGAATATT----TCTAGT----TTACTAGAAGGCT----GTCCTAGGTCTG--------------A----------------------------------------------------------------------------------------------------------AA---------------------------------------------------------------TAATT-AACTAAAAACATT-----------------TCTTACGATTTAT-------------------------------------------------------------GACATTCTTCTAGTAAATTAGCAATATAAAGTAGAGTAAAGACTTGCAGCTTGC--------------------------------------------ACT----------------------TT---TAATATAAGTA
droTak1	scf7180000414337:376691-376851 -	7682	CA--CTTAGAACTTATT----TCTAGT----TTCCCAGAAGTCT----GTCGTTT------------------------T-------------A--------ATTC------------------------GTTT--T---------------------CGTA----------------------------C--------------------------------------------------------------------ATTT---------------------------AAAA-------------------------------------GTGTAATTATTTTTCACGAGTTTTCGACATTCTTTTGGTAAATTAGCCATAAAAAGTAGAGTAAAGACTTGCAGCTTGC--------------------------------------------ACT----------------------TT---TATTATAAGTA
droEle1	scf7180000490579:784550-784723 -	2893	AT---GTAAAACATATTG---CCTAGT----TTATTA-----------------------------------------------------------------TTACGTTCGCAAGTGCGAAGCTTAATTT-------TAATTACTCTT---------------------------------------------------------------------------------------------------------------GATC---------------------------TAAA-------------------------------------ATCCATAAACAACTGAAAAGACGACAACATTTTATCACTGGTTCTATTAT----GGAAGAGTAT------TTG------------------------------------------AGGCTTACGGCCTT----------TAAATCT--TAAATAAATAT-AATA
droRho1	scf7180000780425:1014-1218 -	11349	TGCACTTAAAACATATT----CCTAGT----TTTCTAGAAGTCT----GTCATAACTGAGAAAAGCTGTTCTCGTTTAAAAGTTTTACGAACCA--------TTTG--------------------G---ATGT--TAAA---------------CTA----------------------------------------------------------------------------------AAATTGTAATT-AACTAAAACACAT-----------------GGTAAAGAGTAAC-------------------------------------------------------------GACATTCTTTCAGTAAACTGGCAATATAAAGTAGAGTAAAGACTTGCAGTTTGC--------------------------------------------ACA----------------------TT---TATTATAAGTA
droFic1	scf7180000453929:352124-352311 +	130	TGCCCTTAAAACCTATT----TCTATT----TTCGAAGAGGTCT----GCCATAACTCAA--------------A----------------------------------------------------------------------------------------------------------CACATTTGGC---------AGTTAACA-----------GTT---------------------TACTCATT-A---AAAAATCTTAATTATATGTGTTTAACATTTTAGAGTTAT-------------------------------------------------------------GGCAGACTTTTAGCGAACGAACCATATATAGTAGAGTAAAGACTTGCAGTTTGC--------------------------------------------ACA----------------------TT---TATATTAAGTA
droKik1	scf7180000302180:9486-9662 -	2469	TTTAGTCA---TGTTCG----TCCATG----TTCTTAAAGGCTT----AACGGC--TACT---------------T---A-------------ATTTGGTTACATA------------------------GTT----GCA---------------CCACGCC---------------------------------------------A-----------A--------------------------CTATG-AGCCAAAATCAT------------------------GGGATTTGAATGTCCA----------------------------------------------------------CTGATATCGAATAATAAGTCCTTAGTGAAGG---TACTCTTA------------------------------------------ACGTTTGAGC--------------TAAATCA--A-AAGATAAATGAGTA
droAna3	scaffold_13417:5151173-5151335 +	2106	TTCATTTAAAAGGAATT----TTTATT----CTTATCGAAAACAATATATCGTTC----C--------------AA---T-------------T--------CTTA------------------------GTTT--CCGA---------------TTTAAGG-------------------------------------------------------------------------------------------------------------------------------------------------------G-----------------------------------AATTTTTGAAGTAATTTTATTGAATTTATTATAGGTGGTTAAACAATA-------------------------------TTTTCTTCAATTAAATTGGAGTTTTTAATCTC------------------------ATATTTTCAAA
droBip1	scf7180000391904:11169-11346 -	2879	AAAACATA---CGTTTT--------TT----TCGCTCAGTGA-A----TTCTCTGCTCTC--------------AT---T-------------G--------TTT--------------------------TTC--TCTG---------------CTACGCA---------------------------------------------C-----------ACA---------------------CTCAAATT-TTAAACATGTGT------------------------TAGTTT-----------------------------------------------------------------TGCCCACCACTGGTTTAGATATACTCTCTCGAGTATAT----------------------------------------------CAAACACACAAAATATAATCTTCCGAAATAATCATACT---AATCCATAATA
dp4	chr2:26925016-26925184 -	933	CATT--TTAAATATATT----TTAAAT----CTGAATTCAGTCT----GG------ACCT--------------AT---C-------------A--------CTTA---------------CTTCTTTCA-------AGTCTATTCCG------------AA----------------------------TATATCTTCAATCCGACACCTTTTTGAAACCGTCTTGAATCGAAATTTT--TTTTTTTTTT-AATAAAAAAAAT------------------------TGGATTC----------------------------------------------------------------ATT-TTTTAG-------------------------------------TGCC--------------------------------------------ATT----------------------TT-----------TAT
droPer1	super_42:183057-183224 +	584	ATTTCTAA---TCTG-----------T----TTCCGATAAG--T----GACGATCCATAT--------------AA---T-------------A--------TTGCACACTGACTTACGG-GCACTGTTG-------TA------------------------------------------------------------------------------------------------------------------AGTACATACAA------------------------ACGTAAT-------------------------------------CGCATTTACATATGGAAATAT---GTACCTCATT----------------TATAGTAT------------------------ATAGTATATTCATAGAAGTTTGC-----------------ACA----------------------TAAATATATATATATA
droWil1	scaffold_181024:881694-881865 -	4913	AAATCAAA---T----T----TACATT----CTTTTTCCAACTT----GGGCTTTTTCTT--------------TT---T-------------T--------TTTT------------------------GTTC--TTAC---------------CTACGCAAAAGTAATAAGAGGTTCGATT--------------------------------------------------------------------------------------------------------------------ATCGCAATATATCGCATTTTCCGTCTGACATT-----------GTTCACAATTTTGTGTCAGTATTA-AGTTAATTTGCAATGCAACACAAAT-------------------------------------------------------------------------------------------------GAAATA
droVir3	scaffold_13036:515447-515610 -	3622	TCCAATTAAAACAGTTA----T--TTC----CTCATAACAGTCA----TTCT---CTTTG--------------AC---C-------------G-C------TTTC------------------------GTG---AGCA---------------CTATCCA---------------------------------------------A-----------ACT---------------------ATTTTATTAAGTTAGAGTCGT------------------------TAGTTTTA-------------------------------AGTT-----------GCTTACAATTAATCGGGCATATATCGGGAATTTAGC--------------TAAACAAT---------------------------------------------------------------------------TATTTT---ATATATAAGCA
droMoj3	scaffold_6500:14191327-14191493 +	2021	GGCAAGCTTTGGAGCAT-ACAAGTTGT-----GCATAACTGACT----ATCATTGAACAT--------------AT---T-------------T--------TTTC------------------------CTATTCTTTC------CTATTA---TGTCGT--------------------------------------------------------------------------------------------ACAAATAATAT------------------------GTATTTTGT--------------GCA-----------------------------------AGC--------TTCCAAAAGGCATTCAACCCTATTTTGTAATAAAAAAAT----ATTTTTC--------------------------------------------AAA----------------------TA----AAAAATATAG
droGri2	scaffold_15110:22741833-22741988 -	254	TATGTGTA---TATATT----T--------------GAATATTT----AATTTC--TTTT---------------T---T-------------ATTTACTTATTTA------------------------ATG---TCAACTAAAGTC----AGTCTTCGCAAAAATTGCAAAAAGTCAGAAA----------------------------------------------------AACTTGAAATTAAATT-AAATGTAATATA-----------------CAATTTAAAATTAT-----------------------------------------------------------------------------------------------------------------AT--------------------------------------------ATA-------------TAAA----------TTACAAAATAA

[View All Possible Orthologs]

Original 12-way multiz alignment with reads super-imposed

Species

Alignment

dm3

TGCACTTAAAACATATTTCTAGTCTCCTAAGAGTCTGTCGTTGCTCCTATTATTTAGTTTTTAACTACGCAAGC----------TT---------------------TCTTATTAACTAAAAACATGAGCTTCGG-CATTCTTTTAGGGAATTAGCAATATTTAGTAGAGTAAAGACTTGCAGTTTGCAAAATAATATACATA---AGTA

Size

Hit Count

Total Norm

droSim1

TGCACTTAAAACATATTTCTAGTTTCCTAAAAGTCTGTCGTTGCTCCTATTATTTAGTTTTTAACTACGCAAGC----------TT---------------------TCTTATTAACTAAAAACATGAGCATCGGACATTCTTTTAGGGAATTAGTAATATTTGGTAGAGTAAAGACTTGCAGTTTGCACATTAA----TATA---AGTA	Size	Hit Count	Total Norm	V044 Embryo	M023 Head	M024 Male body	M025 Embryo
.............................................................................................................................TGAGCATCGGACATTCTTTTAG...............................................................	22	1	22.00	0.00	19.00	3.00	0.00
..................................................................................................................................ATCGGACATTCTTTTAGGGA............................................................	20	1	13.00	0.00	0.00	1.00	12.00
...........................TAAAAGTCTGTCGTTGCTCCT..................................................................................................................................................................	21	1	7.00	0.00	5.00	1.00	1.00
..............................................................................................................................GAGCATCGGACATTCTTTTAGG..............................................................	22	1	6.00	0.00	5.00	1.00	0.00
..................................................................................................................................ATCGGACATTCTTTTAGGGAAT..........................................................	22	1	3.00	0.00	1.00	0.00	2.00
...............................................................................................................................AGCATCGGACATTCTTTTAGGG.............................................................	22	1	3.00	0.00	2.00	1.00	0.00
...............................................................................................................................AGCATCGGACATTCTTTTAGGGAATT.........................................................	26	1	3.00	0.00	0.00	0.00	3.00
..................................................................................................................................ATCGGACATTCTTTTAGGGAATTAGT......................................................	26	1	3.00	0.00	0.00	1.00	2.00
................................................................................................................................GCATCGGACATTCTTTTAGG..............................................................	20	1	2.00	0.00	2.00	0.00	0.00
...............................................................................................................................AGCATCGGACATTCTTTTAG...............................................................	20	1	2.00	0.00	1.00	1.00	0.00
..................................................................................................................................ATCGGACATTCTTTTAGGGAA...........................................................	21	1	2.00	0.00	0.00	0.00	2.00
............................................................................................................................ATGAGCATCGGACATTCTTTTAGGGAA...........................................................	27	1	2.00	0.00	0.00	0.00	2.00
............................AAAAGTCTGTCGTTGCTCC...................................................................................................................................................................	19	1	1.00	0.00	0.00	0.00	1.00
........................................................................................................................AAACATGAGCATCGGACATTCTTT..................................................................	24	1	1.00	0.00	0.00	0.00	1.00
..............................................................................................................TATTAACTAAAAACATGAGCATCGGAC.........................................................................	27	1	1.00	0.00	0.00	0.00	1.00
..................................................................................................................................ATCGGACATTCTTTTAGGGAATTAGG......................................................	26	1	1.00	0.00	0.00	0.00	1.00
.........................................................................................................................................................AGTAATATTTGGTAGAGTAAAGACTTG..............................	27	1	1.00	0.00	0.00	1.00	0.00
..................................................................................................................................ATCGGACATTCTTTTAGGGAATT.........................................................	23	1	1.00	0.00	0.00	1.00	0.00
...............................................................................................................................................................ATTTGGTAGAGTAAAGACTTGC.............................	22	1	1.00	0.00	0.00	0.00	1.00
.............................................................................................................................TGAGCATCGGACATTCTTTTAGGGAAT..........................................................	27	1	1.00	0.00	0.00	1.00	0.00
.............................................................................................................................TGAGCGTCGGACATTCTTTT.................................................................	20	1	1.00	0.00	1.00	0.00	0.00
.............................................................................................................................TGAGCATCGGACATTCTTTTA................................................................	21	1	1.00	0.00	1.00	0.00	0.00
.....................GTTTCCTAAAAGTCTGTCGTTGCTCCT..................................................................................................................................................................	27	1	1.00	0.00	1.00	0.00	0.00
............................................................................................................................ATGAGCATCGGACATTCTTTT.................................................................	21	1	1.00	0.00	1.00	0.00	0.00
.................................................................................................................................CATCGGACATTCTTTTAGGGG............................................................	21	1	1.00	0.00	0.00	0.00	1.00
..................................................................................................................................ATCGGACATTCTTTTAGGG.............................................................	19	1	1.00	0.00	0.00	1.00	0.00
..........................................................................................................................................................GTAATATTTGGTAGAGTAAAGAC.................................	23	1	1.00	0.00	0.00	0.00	1.00
.......................TTCCTAAAAGTCTGTCGTTGCTCCT..................................................................................................................................................................	25	1	1.00	0.00	1.00	0.00	0.00
..............................AAGTCTGTCGTTGCTCCT..................................................................................................................................................................	18	1	1.00	0.00	0.00	0.00	1.00
...............TTTCTAGTTTCCTAAAAGTCTGTCGTT........................................................................................................................................................................	27	1	1.00	0.00	0.00	0.00	1.00
.......................TTCCTAAAAGTCTGTCGTTGCTCT...................................................................................................................................................................	24	1	1.00	0.00	0.00	1.00	0.00
..........................CTAAAAGTCTGTCGTTGCTC....................................................................................................................................................................	20	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................................................................AATATTTGGTAGAGTAAAGA..................................	20	1	1.00	1.00	0.00	0.00	0.00
...............................................................................................................................AGCATCGGACATTCTTTTAGG..............................................................	21	1	1.00	0.00	0.00	1.00	0.00
............................................................................................................................ATGAGCATCGGACATTCTTTTA................................................................	22	1	1.00	0.00	0.00	1.00	0.00
..................................................................................................................................ATCGGACATTCTTTTAGGGAATTAGTA.....................................................	27	1	1.00	0.00	0.00	0.00	1.00
.............................................................................................................................TGAGCATCGGACATTGTTTTAG...............................................................	22	1	1.00	0.00	1.00	0.00	0.00
...........................................................................................................................CATGAGCATCGGACATTCTTTTAGGGA............................................................	27	1	1.00	0.00	0.00	0.00	1.00
....CTTAAAACATATTTTTTGT...........................................................................................................................................................................................	19	1	1.00	0.00	0.00	0.00	1.00
..............................................................................................................................GAGCATCGGACATTCTTTTAG...............................................................	21	1	1.00	0.00	0.00	1.00	0.00
.........................................................................................................................AACATGAGCATCGGACATTCTTTTAG...............................................................	26	1	1.00	0.00	0.00	0.00	1.00
...........................TAAAAGTCTGTCGTTGCTC....................................................................................................................................................................	19	1	1.00	0.00	1.00	0.00	0.00
...........................TAAAAGTCTGTCGTTGCTCC...................................................................................................................................................................	20	1	1.00	0.00	1.00	0.00	0.00
.............................AAAGTCTGTCGTTGCTCC...................................................................................................................................................................	18	1	1.00	0.00	0.00	0.00	1.00
................................................................................................................................GCATCGGACATTCTTTTAGGG.............................................................	21	1	1.00	0.00	1.00	0.00	0.00
...........................TAAAAGTCTGTCGTTGCTCCTG.................................................................................................................................................................	22	1	1.00	0.00	1.00	0.00	0.00
.......................TTCCTAAAAGTCTGTCGTTGCTCC...................................................................................................................................................................	24	1	1.00	0.00	0.00	0.00	1.00
.....................GTTTCCTAAAAGTCTGTCGTTGCT.....................................................................................................................................................................	24	1	1.00	0.00	1.00	0.00	0.00
.............................................................................................................................TGAGCATCGGACATTCTTTTAGTT.............................................................	24	1	1.00	0.00	0.00	0.00	1.00

droSec1

TGCACTTAAAACATATTT-TAGTTTCCTAAAAGTCTGTCGTTGCTCCTATTATTTAGTTTTTAACTACGCAAGC----------TT---------------------TCTTATTAACTAAAAATATGAGCTTCGGACATTCTTTTAGGGAATTAGTAATATTTGGTAGAGTAAAGACTTGCAGTTTGCACATATA----TATA---AGTA	Size	Hit Count	Total Norm	V113 Male body	V114 Embryo	V115 Head
.........................................................................................................................................................................GTAAAGACTTGCAGTTTGC......................	19	1	2.00	0.00	2.00	0.00
......................TTTCCTAAAAGTCTGTCGTTGCT.....................................................................................................................................................................	23	1	2.00	0.00	2.00	0.00
...............................................................................................................................................................ATTTGGTAGAGTAAAGACTTGC.............................	22	1	1.00	0.00	1.00	0.00
......................................................................................................................................................ATTAGTAATATTTGGTAGAGTAAA....................................	24	1	1.00	0.00	1.00	0.00
.........................CCTAAAAATCTGTCGTTGCTC....................................................................................................................................................................	21	1	1.00	0.00	0.00	1.00
..............................................................................................................................GAGCTTCGGACATTCTTTTAGGG.............................................................	23	1	1.00	1.00	0.00	0.00
...............................................................................................................ATTAACTAAAAATATGAG.................................................................................	18	1	1.00	0.00	1.00	0.00
................................................................................................................................GCTTCGGACATTCTTTTAGGG.............................................................	21	1	1.00	0.00	0.00	1.00
.........................................................................................................................................................AGTAATATTTGGTAGAGT.......................................	18	1	1.00	0.00	1.00	0.00
...................................................................CGCAAGC----------TT---------------------TCTTATTAACT............................................................................................	20	1	1.00	0.00	1.00	0.00
...............................................................................................................................................................ATTTGGTAGAGTAAAGACTTGCAGT..........................	25	1	1.00	0.00	1.00	0.00
...............................................................................................................................AGCTTCGGACATTCTTTTAGGGT............................................................	23	1	1.00	0.00	0.00	1.00
.................................................................................................................................CTTCGGACATTTTTTTAGGGA............................................................	21	1	1.00	0.00	1.00	0.00
........................TCCTAAAAGTCTGTCGTTGCTC....................................................................................................................................................................	22	1	1.00	0.00	0.00	1.00
.......................TTCCTAAAAGTCTGTCGTTGCTTT...................................................................................................................................................................	24	1	1.00	0.00	0.00	1.00
............................AAAAGTCTGTCGTTGCTCCT..................................................................................................................................................................	20	1	1.00	0.00	1.00	0.00
........................................................................................................................................................TAGTAATATTTGGTAGAGTAAAGACT................................	26	1	1.00	0.00	1.00	0.00
.....................GTTTCCTAAAAGTCTGTC...........................................................................................................................................................................	18	1	1.00	0.00	1.00	0.00
......................................................................................................................................................ATTAGTAATATTTGGTAGA.........................................	19	1	1.00	0.00	1.00	0.00
................................................................................................................................GCTTCGGACATTCTTTTAGGGAATT.........................................................	25	1	1.00	0.00	1.00	0.00
...............................................................................................................................AGCTTCGGACATTCTTTTAGGGAATT.........................................................	26	1	1.00	0.00	0.00	1.00
....................AGTTTCCTAAAAGTCTGTCGTTGCTC....................................................................................................................................................................	26	1	1.00	1.00	0.00	0.00
..........................................................TTTTAACTACGCAAGC----------TT---------------------TCT....................................................................................................	21	1	1.00	0.00	1.00	0.00
......................................................................................................................................................ATTAGTAATATTTGGTAGAGT.......................................	21	1	1.00	0.00	1.00	0.00
..........................CTAAAAGTCTGTCGTTGCTCT...................................................................................................................................................................	21	1	1.00	0.00	0.00	1.00
.................................................................................................................................CTTCGGACATTCTTTTAGGGAATTAGTAA....................................................	29	1	1.00	1.00	0.00	0.00
.............................................................................................................................TGAGCTTCGGACACTCTTTT.................................................................	20	1	1.00	1.00	0.00	0.00
.................................................................................................................................CTTCGGACATTCTTTTAGGGA............................................................	21	1	1.00	0.00	1.00	0.00
...............................................................................................................................................................ATTTGGTAGAGTAAAGACTTGCAGTT.........................	26	1	1.00	0.00	1.00	0.00
...........................................................................................................................................................................AAAGACTTGCAGTTTGCACAT..................	21	1	1.00	0.00	1.00	0.00
................................................................................................................................GCTTCGGACATTCTTTTAG...............................................................	19	1	1.00	0.00	0.00	1.00
.........................................................................................................................................................................GTAAAGACTTGCAGTTTGCA.....................	20	1	1.00	0.00	1.00	0.00
................................................................................................................................GCTTCGGACATTCTTTTAGGGA............................................................	22	1	1.00	0.00	1.00	0.00
..................................................................................................................................TTCGGACATTCTTTTAGGGA............................................................	20	1	1.00	0.00	1.00	0.00
......................................................................................................................................................................AGAGTAAAGACTTGCAGT..........................	18	1	1.00	0.00	1.00	0.00

droYak2

TGCACTTAAAACATATTCTTAGTTCTCTAAAAGACTGTCGTTACTCTTTTTTTTTAGTT-ATAACTACGCAGGCTTTGGGAAACGTTTAAATTCGAAAGGCTAAAAATCGAATTAACTAAAATCATGAGTTTCG-ACATTCTTTTGTTGAATTAGTAATATTTACTAGAGTAAAGACTTGCAGTTTGCACATTTA---ATATA---AGTA	Size	Hit Count	Total Norm	V046 Embryo	V052 Head	V120 Male body	V058 Head	M026 Head
..........................................................T-ATAACTACGCAGGCTTTGGGA.................................................................................................................................	22	1	3.00	2.00	0.00	1.00	0.00	0.00
............................................................ATAACTACGCAGGCTTTGGGA.................................................................................................................................	21	1	2.00	1.00	0.00	1.00	0.00	0.00
...............................................................ACTACGCAGGCTTTGGGA.................................................................................................................................	18	1	1.00	0.00	0.00	0.00	1.00	0.00
.........................................................................................................................................................................GTAAAGACTTGCAGTTTGCA.....................	20	1	1.00	1.00	0.00	0.00	0.00	0.00

droEre2

TGCACTTAACGCATATTCCTAGTTC-CCAAAAGATCGTCGTTGCTCTT---TTTTAGTT-ATAACTACGCAGGATTAGGTGAGCTTT-CAATCTGAAAG----------------GCTAAAAATCTGAGTTTCG-ACACTCTTTTGTTGAATTAGTAATATTTTGTAGAGTAAAGACTTGCAGTTTGCACATTTA---TTATA---AGTA	Size	Hit Count	Total Norm	V040 Embryo	V060 Head	V047 Embryo	V108 Head
...........................................................................................................................................................................AAAGACTTGCAGTTTGCACAT..................	21	1	1.00	1.00	0.00	0.00	0.00
...................................................................CGCAGGATTAGGTGAGCTTT-..........................................................................................................................	20	1	1.00	1.00	0.00	0.00	0.00
..................................................................ACGCAGGATTAGGTGAGCTTT-..........................................................................................................................	21	1	1.00	1.00	0.00	0.00	0.00

droAna3

GCGAAGAAACCCACTTTGTTATAT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTTTACATATCCGATT

Size

Hit Count

Total Norm

V105
Male body

V106
Head

V055
Unknown

V039
Embryo

dp4

cgtacataatacat----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Size

Hit Count

Total Norm

V112
Male body

V043
Embryo

V051
Head

M022
Male body

droPer1

cgtacataataca-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Size

Hit Count

Total Norm

V111
Male body

V042
Embryo

V050
Head

V057
Head

M021
Embryo

droWil1

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

Size

Hit Count

Total Norm

V117
Male body

V118
Embryo

V119
Head

M020
Head

droVir3

TAGACTTGAATTATATTTGTAATT-----------------------------------------------------------------------------------------TAGTTAATAATATATACTCCAGACT--CTT---------CGATAATATTTACT---ATGAAGGCTAGCATGTAGCCCTTT-------------ACTA	Size	Hit Count	Total Norm	V116 Male body	V053 Unknown	V047 Embryo	M027 Male body	M028 Head
...............TTTGTTATT-----------------------------------------------------------------------------------------TAGTTAATG........................................................................................	18	1	1.00	0.00	0.00	0.00	1.00	0.00

droMoj3

Size

Hit Count

Total Norm

V110
Male body

V056
Unknown

V049
Head

V041
Embryo

droGri2

TGAGCTTTAAGCTC-------------------------------------------------------------------------------------------------------------------------------TTCAAGAAGATGAGCCAGT-GTTGCAAAGAAAACTGCCCCGATCTAAAAACATA--TTCATG--TCATA	Size	Hit Count	Total Norm	V109 Male body
................................................................................................................................................AAGAAGATGAGCCAGT-GTTGCA...........................................	22	1	1.00	1.00

12-way Secondary Structure

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