Locus 1565

Sequence ID X_DroMel_CAF1
Location 4,474,002 – 4,474,122
Length 120
Max. P 0.606046
window2574

overview

Window 4

Location 4,474,002 – 4,474,122
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.50
Mean single sequence MFE -33.63
Consensus MFE -20.12
Energy contribution -22.57
Covariance contribution 2.45
Combinations/Pair 1.07
Mean z-score -1.76
Structure conservation index 0.60
SVM decision value 0.15
SVM RNA-class probability 0.606046
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4474002 120 + 22224390
CUUUUUGCUGGUUCAGCUGUUUCCGCAGCUGGUAAAGUUUCUGUUUCUGGAGCAAUACAAACUCUUCAAGCUGCUCGUUCUCAUAAUGCUCGCAGAACUGACGCUGCCUUUGCUGGACAA
..........(((((((.......(((((..(((..(((((.......)))))..))).......(((..((((..((.........))..))))...))).)))))....))))))).. ( -29.90)
>DroSec_CAF1 75568 93 + 1
CUUUUUGCUGGUUCAGCUGCUUCUGCAGCUGGUAAAGUUUCUGUUCCUGGAGCAAUACAAACUGUUCCAGCUCCUCGGUCUGAUAAU---------------------------GGACAA
......(((...((((((((....))))))))...)))........((((((((........)))))))).......((((......---------------------------)))).. ( -30.30)
>DroSim_CAF1 72772 120 + 1
CUCUUUGCUGGUUCAGCUGCUUCUGCAGCUGGUAAAGUUUCUGUUGCUGGAGCAAUACAAACUGUUGCUGCUGCUGGUUCUGAUAAUGCUCGCGGAACUGACGCUGUCUUUGCUGGACAA
..........(((((((.((.((.(((((.((((((((((.((((((....)))))).))))).)))))))))).(((((((..........))))))))).)).......))))))).. ( -40.70)
>consensus
CUUUUUGCUGGUUCAGCUGCUUCUGCAGCUGGUAAAGUUUCUGUUCCUGGAGCAAUACAAACUGUUCCAGCUGCUCGUUCUGAUAAUGCUCGC_GAACUGACGCUG_CUUUGCUGGACAA
..........(((((((.......((((((((...(((((.((((.(....).)))).)))))...)))))))).................((((........))))....))))))).. (-20.12 = -22.57 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:40 2006