Locus 4669

Sequence ID 3R_DroMel_CAF1
Location 12,319,153 – 12,319,273
Length 120
Max. P 0.793279
window7664

overview

Window 4

Location 12,319,153 – 12,319,273
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.50
Mean single sequence MFE -34.77
Consensus MFE -32.19
Energy contribution -31.97
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.04
Structure conservation index 0.93
SVM decision value 0.59
SVM RNA-class probability 0.793279
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12319153 120 - 27905053
GGGCCAAAAGACAGCCGAGCCGUGGGCAAACAAAAAAUGCUUAAUUAUGUCAUGAGGGUGGGAACUAAGGCAGCAGAAAAUAAUUUGCAAAGGCUGAUUGCAGCCAGGCCGUGAGCAACA
.((((........(((...((.((((((.........)))))).......(((....)))))......))).(((((......)))))...(((((....))))).)))).......... ( -31.70)
>DroSec_CAF1 10406 120 - 1
GGGCCAAAAGCCAGCCGAGCCGUAGGCAAACAAAAAAUGCUUAAUUAUGUCAUGAGGGUGGGAACUAAGGCAGCAGAAAAUAAUUUGCACAGGCUGAUUGCAGCCAGGCCGUGAGCAACA
.(((.....))).(((........)))..........((((((....(.((((....)))).).....(((.(((((......)))))...(((((....)))))..))).))))))... ( -34.50)
>DroSim_CAF1 6505 120 - 1
GGGCCAAACGGCAGCCGAGCCGUAGGCAAACAAAAAAUGCUUAAUUAUGUCAUGAGGGUGGGAACUAAGGCAGCAGAAAAUAAUUUGCAAAGGCUGAUUGCAGCCAGGCCGUGAGCAACA
..(((..(((((......))))).)))..........((((((....(.((((....)))).).....(((.(((((......)))))...(((((....)))))..))).))))))... ( -38.10)
>consensus
GGGCCAAAAGACAGCCGAGCCGUAGGCAAACAAAAAAUGCUUAAUUAUGUCAUGAGGGUGGGAACUAAGGCAGCAGAAAAUAAUUUGCAAAGGCUGAUUGCAGCCAGGCCGUGAGCAACA
.((((........(((...((.((((((.........)))))).......(((....)))))......))).(((((......)))))...(((((....))))).)))).......... (-32.19 = -31.97 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:57 2006