Locus 1742

Sequence ID 3L_DroMel_CAF1
Location 5,040,939 – 5,041,049
Length 110
Max. P 0.841486
window2686

overview

Window 6

Location 5,040,939 – 5,041,049
Length 110
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 87.32
Mean single sequence MFE -36.30
Consensus MFE -27.90
Energy contribution -26.38
Covariance contribution -1.52
Combinations/Pair 1.34
Mean z-score -1.94
Structure conservation index 0.77
SVM decision value 0.75
SVM RNA-class probability 0.841486
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5040939 110 - 23771897
CGCUCCCGCGAAGCCAUCCUACGCCCACAAACCUCGGGAAUAUGGCAAGGG-------AGCAGGAAGCAAACCAGAUUUACUUGUGAGUUUCCUUGCCGGAGUUUCGUAUUUUCAUU
.......(((((((..(((....(((.........))).....((((((((-------(((.(.(((.(((.....))).))).)..)))))))))))))))))))))......... ( -33.60)
>DroSec_CAF1 247407 110 - 1
CGCUCCCGCGAAGCCAUCCUACGCCCACAGAACUGGGGAAUAUGGCAAGGG-------AGCAGGAAACAUGCCAGAUUUACUUGCGAGUUUCCUUGCCGGAGUUUUGCAUUUUCAUC
.......(((((((..(((....(((.((....))))).....((((((((-------(((.(....).(((.((.....)).))).)))))))))))))))))))))......... ( -40.10)
>DroSim_CAF1 268269 110 - 1
CGCUCCCGCGAAGCCAUCCUACGCCCACAAAACUGGGGAAUAUGGCAAGGG-------AGCAGGAAACAUACCAGAUUUACUUGCGAGUUUCCUUGCCGGAGUUUUGCAUUUUCAUC
.......(((((((..(((....((((......))))......((((((((-------(((.(....)...((((......))).).)))))))))))))))))))))......... ( -37.00)
>DroEre_CAF1 250855 110 - 1
CGCUCCCGCGAAGCCAUUCCACGCCCACAAAACUGGCGAAUAUGGUAAGGG-------AGCAGGAAACAUACCAGAUUUACUUGCGAGUUUCCUUGUUAGAGUUUCGUAUUUUCAUC
.((((((.....(((((....((((.........))))...)))))..)))-------)))..((((.((((.((((((....(((((....)))))..)))))).))))))))... ( -33.70)
>DroYak_CAF1 257211 117 - 1
CGCUCCCGCGAAGCCAUCCAACGCCCACAAAACUGGGAACUCUGGUGGGGGAUGGAAAAGCAGGAAAGCUACCAGAUUUACUUGCGAGUUUCCUUGCCAGAGUUUCGUAUUUGAAUC
.(((((.((....((((((....(((((......(....)....)))))))))))....)).)))..)).....((((((..((((((.(((.......))).))))))..)))))) ( -37.10)
>consensus
CGCUCCCGCGAAGCCAUCCUACGCCCACAAAACUGGGGAAUAUGGCAAGGG_______AGCAGGAAACAUACCAGAUUUACUUGCGAGUUUCCUUGCCGGAGUUUCGUAUUUUCAUC
.......((((((((........((((......)))).....(((((((((........((((((((.........))).))))).....)))))))))).)))))))......... (-27.90 = -26.38 +  -1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:01 2006