Locus 6285

Sequence ID dm3.chr3L
Location 5,260,521 – 5,260,596
Length 75
Max. P 0.995621
window8639

overview

Window 9

Location 5,260,521 – 5,260,596
Length 75
Sequences 5
Columns 75
Reading direction reverse
Mean pairwise identity 88.40
Shannon entropy 0.20482
G+C content 0.36267
Mean single sequence MFE -21.66
Consensus MFE -17.30
Energy contribution -18.14
Covariance contribution 0.84
Combinations/Pair 1.14
Mean z-score -3.32
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.82
SVM RNA-class probability 0.995621
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 5260521 75 - 24543557
GAGCACUUAUUCAAUUGACGCUUUUGCGUUGGUAACAUUGGUUGAGCCAUUUUGCUUAAUUAAUGUAAAGCUUUC
((((.........((..((((....))))..)).(((((((((((((......)))))))))))))...)))).. ( -26.70, z-score =  -5.18, R)
>droEre2.scaffold_4784 7957206 75 - 25762168
UGGCAGUUAUUCAAUUGACGCAUUUACUUUGGUAACACUGAUUGAGCCAUUUUGCUUAAUUAAUGUAAUGCUUGC
..(((((((......))))((((((((....)))(((.(((((((((......))))))))).)))))))).))) ( -18.50, z-score =  -2.09, R)
>droYak2.chr3L 5825266 75 - 24197627
CGGCAGUUAUUAAAUUGACGCAUUUACGUUGGUAAACUUGAUUGCGUCGUUUUGCCUAAUUUAUGUAAAGCUUUC
.(((((.........(((((((.(((.(((....))).))).)))))))..)))))................... ( -18.10, z-score =  -1.92, R)
>droSec1.super_2 5213247 75 - 7591821
GGGCACUUAUUCAAUUGACGCUUUUACGUUGGUAACAUUGGUCGAGCCAUUUUGCUUAAUUAAUGUAAAGCUUUC
((((.........((..(((......)))..)).((((((((..(((......)))..))))))))...)))).. ( -19.10, z-score =  -2.67, R)
>droSim1.chr3L 4778363 75 - 22553184
GGGCACUUAUUCAAUUGACGCUUUUGCGUUGGUAACAUUGGUUGAGCCAUUUUGCUUAAUUAAUGUAAAGCUUUC
((((.........((..((((....))))..)).(((((((((((((......)))))))))))))...)))).. ( -25.90, z-score =  -4.74, R)
>consensus
GGGCACUUAUUCAAUUGACGCUUUUACGUUGGUAACAUUGGUUGAGCCAUUUUGCUUAAUUAAUGUAAAGCUUUC
.(((.........((..(((......)))..)).(((((((((((((......)))))))))))))...)))... (-17.30 = -18.14 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:04:41 2011