Locus 11300

Sequence ID dm3.chr3R
Location 20,176,133 – 20,176,188
Length 55
Max. P 0.902923
window15531

overview

Window 1

Location 20,176,133 – 20,176,188
Length 55
Sequences 6
Columns 59
Reading direction reverse
Mean pairwise identity 79.88
Shannon entropy 0.37778
G+C content 0.42399
Mean single sequence MFE -15.07
Consensus MFE -8.19
Energy contribution -8.00
Covariance contribution -0.19
Combinations/Pair 1.40
Mean z-score -2.30
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.17
SVM RNA-class probability 0.902923
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 20176133 55 - 27905053
UACAAUCAAGGGUAGGUUGGCUUC----GGGAACCGAAGUUUCAAAUACUUUUGCAGCC
......((((((((....((((((----((...)))))))).....))))))))..... ( -16.10, z-score =  -2.44, R)
>dp4.chr2 12161683 59 + 30794189
AACACUUAAAAAUACUUUUUUUUUCGUAUGGAUUCCAAGGAAAAAAUAACUUGGUAUCC
...((..(((((......)))))..))..((((.(((((..........))))).)))) ( -10.80, z-score =  -1.91, R)
>droSim1.chr3R 20010526 55 - 27517382
UACAAUCAAGGGUAGGCUGGCUUC----GGGAACCGAAGUUUCAAAUACUUUUGCAACC
......((((((((....((((((----((...)))))))).....))))))))..... ( -16.10, z-score =  -2.57, R)
>droSec1.super_0 20514662 55 - 21120651
UACAAUCAAGGGUAGGUUGGCUUC----GGGAACCAAAGUUUCAAAUACUUUUGCAGCC
......((((((((....(((((.----((...)).))))).....))))))))..... ( -10.20, z-score =  -0.24, R)
>droEre2.scaffold_4820 2585563 55 + 10470090
UACAAUCAAGGGUAGGUUGGCUUC----GGGAACCGAAGUUUCAAAUACUCUUGCACCC
......((((((((....((((((----((...)))))))).....))))))))..... ( -18.60, z-score =  -3.03, R)
>droYak2.chr3R 2502768 55 + 28832112
UACAAUCAAGGGUAGGUUGGCUUC----GGGAACCGAAGUUUCAAAUACUCUUGCAACC
......((((((((....((((((----((...)))))))).....))))))))..... ( -18.60, z-score =  -3.61, R)
>consensus
UACAAUCAAGGGUAGGUUGGCUUC____GGGAACCGAAGUUUCAAAUACUUUUGCAACC
......((((((((....((((((....(....).)))))).....))))))))..... ( -8.19 =  -8.00 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:40:16 2011