Locus 14849

Sequence ID dm3.chrX
Location 15,816,216 – 15,816,318
Length 102
Max. P 0.943772
window20448 window20449

overview

Window 8

Location 15,816,216 – 15,816,316
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 82.88
Shannon entropy 0.30553
G+C content 0.34248
Mean single sequence MFE -20.97
Consensus MFE -16.20
Energy contribution -16.76
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -1.68
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.89
SVM RNA-class probability 0.844873
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15816216 100 - 22422827
CAAGUGUCAGUCAAAUUAAUUUGAGUCGGCACUUAGCUUGAUUAAGUUUUGUAUACCACAAAAUUAGUUGAGUGAUUCCGUAUACAGAAAGAUACGUUCA
.((((((((.(((((....))))).).))))))).(((..(((((.((((((.....)))))))))))..)))((...(((((........))))).)). ( -26.10, z-score =  -3.41, R)
>droSim1.chrX_random 4083972 92 - 5698898
CAAGUGUCAGUCAAAAUAAUUUGAGGCGGCACUUAGCUUGAUUAAGUUUUGUAUACCAAGAAAU--------UUAGUAGGUAUGCAUAAAGAUACCUUCA
.(((((((.(((..((....))..))))))))))......((((((((((.........)))))--------)))))((((((........))))))... ( -19.00, z-score =  -1.26, R)
>droSec1.super_37 392497 92 - 454039
CAAGUGUCAGUCAAACUAAUUUCAGGCGGCACUUAGCUGGAUUAAGUUUUGUAUACCAAGAAAU--------UUAGUACGUAUACAGAAAGAUACCUUCA
.(((((((.(((............)))))))))).(..(((((...((((((((((........--------.......)))))))))).))).))..). ( -19.06, z-score =  -1.48, R)
>droYak2.chrX 10006894 99 - 21770863
CAAGUGUCAGUCAAAUUAAUUUGAGACGGCACUUAGCUUGAUUAAGUUUUGUAUACCCCAAAUUUUGCUGA-GUACUUAGUAUACAAAAAGAUACAUUCA
...(((((.....((((((.(((((......))))).))))))...((((((((((.....((((....))-)).....)))))))))).)))))..... ( -19.60, z-score =  -1.48, R)
>droEre2.scaffold_4690 7516820 99 + 18748788
CAAGUGUCAGUCAAAUUAAUUUGAGGCGGCACUUAGCUUGAUUAUGUUUUGUAUACGCGAAAUUUUCUUGA-GUACUUAGUAUACAGAAAGAUGCAUCCA
...(((((.....((((((.(((((......))))).))))))...((((((((((.....((((....))-)).....)))))))))).)))))..... ( -21.10, z-score =  -0.75, R)
>consensus
CAAGUGUCAGUCAAAUUAAUUUGAGGCGGCACUUAGCUUGAUUAAGUUUUGUAUACCAAAAAAUU___UGA_UUACUAAGUAUACAGAAAGAUACAUUCA
...(((((.....((((((.(((((......))))).))))))...((((((((((.......................)))))))))).)))))..... (-16.20 = -16.76 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 15,816,218 – 15,816,318
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 82.88
Shannon entropy 0.30553
G+C content 0.34248
Mean single sequence MFE -22.27
Consensus MFE -18.42
Energy contribution -18.54
Covariance contribution 0.12
Combinations/Pair 1.08
Mean z-score -1.83
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.49
SVM RNA-class probability 0.943772
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15816218 100 - 22422827
UGCAAGUGUCAGUCAAAUUAAUUUGAGUCGGCACUUAGCUUGAUUAAGUUUUGUAUACCACAAAAUUAGUUGAGUGAUUCCGUAUACAGAAAGAUACGUU
...((((((((.(((((....))))).).))))))).(((..(((((.((((((.....)))))))))))..))).....(((((........))))).. ( -25.60, z-score =  -2.99, R)
>droSim1.chrX_random 4083974 92 - 5698898
UGCAAGUGUCAGUCAAAAUAAUUUGAGGCGGCACUUAGCUUGAUUAAGUUUUGUAUACCAAGAAAU--------UUAGUAGGUAUGCAUAAAGAUACCUU
.(((((((((.(((..((....))..)))))))))).))...((((((((((.........)))))--------)))))((((((........)))))). ( -21.40, z-score =  -1.80, R)
>droSec1.super_37 392499 92 - 454039
UGCAAGUGUCAGUCAAACUAAUUUCAGGCGGCACUUAGCUGGAUUAAGUUUUGUAUACCAAGAAAU--------UUAGUACGUAUACAGAAAGAUACCUU
.(((((((((.(((............)))))))))).)).(((((...((((((((((........--------.......)))))))))).))).)).. ( -21.06, z-score =  -1.82, R)
>droYak2.chrX 10006896 99 - 21770863
UGCAAGUGUCAGUCAAAUUAAUUUGAGACGGCACUUAGCUUGAUUAAGUUUUGUAUACCCCAAAUUUUGCUGA-GUACUUAGUAUACAAAAAGAUACAUU
.(((((((((.(((............)))))))))).)).........((((((((((.....((((....))-)).....))))))))))......... ( -20.90, z-score =  -1.69, R)
>droEre2.scaffold_4690 7516822 99 + 18748788
UGCAAGUGUCAGUCAAAUUAAUUUGAGGCGGCACUUAGCUUGAUUAUGUUUUGUAUACGCGAAAUUUUCUUGA-GUACUUAGUAUACAGAAAGAUGCAUC
.(((((((((..(((((....)))))...))))))).)).((......((((((((((.....((((....))-)).....)))))))))).....)).. ( -22.40, z-score =  -0.85, R)
>consensus
UGCAAGUGUCAGUCAAAUUAAUUUGAGGCGGCACUUAGCUUGAUUAAGUUUUGUAUACCAAAAAAUU___UGA_UUACUAAGUAUACAGAAAGAUACAUU
.(((((((((..(((((....)))))...))))))).)).........((((((((((.......................))))))))))......... (-18.42 = -18.54 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:48:02 2011