Locus 4331

Sequence ID 3R_DroMel_CAF1
Location 11,453,612 – 11,453,726
Length 114
Max. P 0.515233
window7078

overview

Window 8

Location 11,453,612 – 11,453,726
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.03
Mean single sequence MFE -28.48
Consensus MFE -22.42
Energy contribution -23.18
Covariance contribution 0.75
Combinations/Pair 1.11
Mean z-score -1.43
Structure conservation index 0.79
SVM decision value -0.04
SVM RNA-class probability 0.515233
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11453612 114 + 27905053
UGCAUCUUGAAUCCGACU------CCCAUCGGGGGCACAUACAUACAUAUACACAUGGCCCUGCAGUCUAGGGCGAUGCCACAAAUAUUUCCCCCACAAUAUUCAGCUGGAUCUGUGCCA
...........(((((..------....)))))((((((..............(((.((((((.....)))))).)))(((..((((((........))))))....)))...)))))). ( -30.20)
>DroSec_CAF1 186120 98 + 1
UGCAUCUCGAAUCCGACU------CCCAUCGGGGGCA----------------CAUGGCCCUGCAGUCUAGGGCGAUGCCACAAAUAUUUCCCCCACAAUAUUCAGCUGGAUCUGUGCCA
...........(((((..------....)))))((((----------------((..((((((.....))))))(((.(((..((((((........))))))....)))))))))))). ( -29.10)
>DroSim_CAF1 181176 98 + 1
UGCAUCUCGAAUCCGACU------CCCAUCGGGGGCA----------------CAUGGCCCUGCAGUCUAGGGCGAUGCCACAAGUAUUUCCCCAACAAUAUUCAGCUGGAUCUGUGCCA
...........(((((..------....)))))((((----------------((..((((((.....))))))(((.(((..((((((........))))))....)))))))))))). ( -29.10)
>DroYak_CAF1 179166 112 + 1
UGCAUCUCCAACCCGAUUCCCAUUCCCAUCAGGGGCAC--------AUAUACACAUGGCCCUGCAGUCUGGGGCCCUGCCACAAAUAUUUCCCCCACAAUACUCAGCUGGAUCUGUGCCA
.((((.((((....(((..........))).((((...--------((((...((.((((((.......)))))).))......))))...))))............))))...)))).. ( -25.50)
>consensus
UGCAUCUCGAAUCCGACU______CCCAUCGGGGGCA________________CAUGGCCCUGCAGUCUAGGGCGAUGCCACAAAUAUUUCCCCCACAAUAUUCAGCUGGAUCUGUGCCA
...........(((((............)))))(((((...............(((.((((((.....)))))).)))(((..((((((........))))))....)))....))))). (-22.42 = -23.18 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:26 2006