Locus 10744

Sequence ID dm3.chr3R
Location 16,163,942 – 16,164,038
Length 96
Max. P 0.846857
window14761 window14762

overview

Window 1

Location 16,163,942 – 16,164,038
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 86.90
Shannon entropy 0.24658
G+C content 0.51079
Mean single sequence MFE -31.85
Consensus MFE -21.17
Energy contribution -22.37
Covariance contribution 1.19
Combinations/Pair 1.03
Mean z-score -2.17
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.55
SVM RNA-class probability 0.739759
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16163942 96 + 27905053
CGACCAACAGAAUUUGCUGGCAGACCAAUUGAAUUGUUUCAAUUGACACUUGGCCUGGUCCCGGCUCAGUUUCUGUCGACUGUGGAUCUGUGGACC
...(((.((((.((..((((((((.((((((((....))))))))..(((.((((.(....))))).))).)))))))...)..)))))))))... ( -32.90, z-score =  -2.39, R)
>droSim1.chr3R 22201706 96 - 27517382
CGGCCAACAGAAUUUGCUGGCAGACCAAUUGAAUUGUUUCAAUUGACACUUGGCCUGGUCCCGGCUCAGUUUCUGUCGACUGUGGAUCUGUGGACC
.(((((.((((.((..((((((((.((((((((....))))))))..(((.((((.(....))))).))).)))))))...)..))))))))).)) ( -34.50, z-score =  -2.41, R)
>droSec1.super_27 225041 96 - 799419
CGGCCAACAGAAUUUGCUGGCAGACCAAUUGAAUUGUUUCAAUUGACACUUGGCCUGGUCCCGGCUCAAUUUCUGUCGACUGUGGAUCUGUGGACC
.(((((.((((.((..((((((((.((((((((....))))))))....((((((.(....)))).)))..)))))))...)..))))))))).)) ( -32.60, z-score =  -2.25, R)
>droYak2.chr3R_random 2682636 92 + 3277457
CGGCCAACAGAAUUUGCUGGCAGACCAAUUGAAUUGUUUCAAUUGACACUUGGCCGGGUCCCGGCUCAGUUUCUGUCGACCGU----CUGUGGACC
.(((((.((((....(.(((((((.((((((((....))))))))..(((.((((((...)))))).))).))))))).)..)----)))))).)) ( -36.10, z-score =  -3.03, R)
>droEre2.scaffold_4770 12234862 92 - 17746568
CGGCCAACAGAAUUUGCUGGCAGACCAAUUGAAUUGUUUCAAUUGACACUUGGCCUGGUCCCGGCUCAGUUUCUGUCGACCGU----CUGUGGACC
.(((((.((((....(.(((((((.((((((((....))))))))..(((.((((.(....))))).))).))))))).)..)----)))))).)) ( -32.00, z-score =  -2.17, R)
>droAna3.scaffold_12911 2476226 80 - 5364042
------------CCGGUUGGCAGAGCAAUUGAAUUGUUUCAAUUGACACUUGGCCCAGUCUCGGCUCAGUUUCCGUUGCCUGU----UUUUGGAGC
------------((((..(((((.(((((((((....)))))))((.(((.((((.......)))).))).))....))))))----).))))... ( -23.00, z-score =  -0.75, R)
>consensus
CGGCCAACAGAAUUUGCUGGCAGACCAAUUGAAUUGUUUCAAUUGACACUUGGCCUGGUCCCGGCUCAGUUUCUGUCGACUGU____CUGUGGACC
...(((.(((.....(.(((((((.((((((((....))))))))..(((.((((.......)))).))).))))))).).......))))))... (-21.17 = -22.37 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,163,942 – 16,164,038
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 86.90
Shannon entropy 0.24658
G+C content 0.51079
Mean single sequence MFE -30.42
Consensus MFE -21.33
Energy contribution -22.83
Covariance contribution 1.50
Combinations/Pair 1.13
Mean z-score -2.20
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.90
SVM RNA-class probability 0.846857
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16163942 96 - 27905053
GGUCCACAGAUCCACAGUCGACAGAAACUGAGCCGGGACCAGGCCAAGUGUCAAUUGAAACAAUUCAAUUGGUCUGCCAGCAAAUUCUGUUGGUCG
(..(.(((((....((((........)))).((.((...((((((((.((..(((((...))))))).)))))))))).))....))))).)..). ( -27.70, z-score =  -1.08, R)
>droSim1.chr3R 22201706 96 + 27517382
GGUCCACAGAUCCACAGUCGACAGAAACUGAGCCGGGACCAGGCCAAGUGUCAAUUGAAACAAUUCAAUUGGUCUGCCAGCAAAUUCUGUUGGCCG
((((.(((((....((((........)))).((.((...((((((((.((..(((((...))))))).)))))))))).))....))))).)))). ( -30.90, z-score =  -1.98, R)
>droSec1.super_27 225041 96 + 799419
GGUCCACAGAUCCACAGUCGACAGAAAUUGAGCCGGGACCAGGCCAAGUGUCAAUUGAAACAAUUCAAUUGGUCUGCCAGCAAAUUCUGUUGGCCG
((((....))))....((((((((((.(((.((..(((((.(((.....)))(((((((....))))))))))))))...))).)))))))))).. ( -30.40, z-score =  -2.00, R)
>droYak2.chr3R_random 2682636 92 - 3277457
GGUCCACAG----ACGGUCGACAGAAACUGAGCCGGGACCCGGCCAAGUGUCAAUUGAAACAAUUCAAUUGGUCUGCCAGCAAAUUCUGUUGGCCG
.(((....)----))((((((((((((((..(((((...)))))..))).(((((((((....)))))))))............))))))))))). ( -36.90, z-score =  -3.54, R)
>droEre2.scaffold_4770 12234862 92 + 17746568
GGUCCACAG----ACGGUCGACAGAAACUGAGCCGGGACCAGGCCAAGUGUCAAUUGAAACAAUUCAAUUGGUCUGCCAGCAAAUUCUGUUGGCCG
.(((....)----))(((((((((((.(((.((..(((((.(((.....)))(((((((....)))))))))))))))))....))))))))))). ( -34.90, z-score =  -3.08, R)
>droAna3.scaffold_12911 2476226 80 + 5364042
GCUCCAAAA----ACAGGCAACGGAAACUGAGCCGAGACUGGGCCAAGUGUCAAUUGAAACAAUUCAAUUGCUCUGCCAACCGG------------
.........----...((((..(....).((((.((.(((......))).))(((((((....)))))))))))))))......------------ ( -21.70, z-score =  -1.52, R)
>consensus
GGUCCACAG____ACAGUCGACAGAAACUGAGCCGGGACCAGGCCAAGUGUCAAUUGAAACAAUUCAAUUGGUCUGCCAGCAAAUUCUGUUGGCCG
................((((((((((.(((.((..(((((.(((.....)))(((((((....)))))))))))))))))....)))))))))).. (-21.33 = -22.83 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:29:36 2011