Locus 3728

Sequence ID X_DroMel_CAF1
Location 9,934,393 – 9,934,513
Length 120
Max. P 0.928022
window6111

overview

Window 1

Location 9,934,393 – 9,934,513
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.78
Mean single sequence MFE -34.73
Consensus MFE -23.13
Energy contribution -23.80
Covariance contribution 0.67
Combinations/Pair 1.11
Mean z-score -2.32
Structure conservation index 0.67
SVM decision value 1.19
SVM RNA-class probability 0.928022
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9934393 120 + 22224390
AAACUACAAAAGUUGCUGAAAGAGAUGGAGAGAUUGCUGGCGAAAGAGAGGUCAGAGCUUAGUCAUUCCCUUGCUGACAUUCUCUUAUUGUUGCCGUCUCUUUCGUUUGCAUUCUUAUGU
.....(((.(((.(((((((((((((((((......))(((((((((((((((((.....((.......))..))))).))))))).))))).))))))))))))...)))..))).))) ( -36.50)
>DroSec_CAF1 4211 105 + 1
AAACUACAA-AGUUGCUGAAAGAGAUGGAGAGAUUGCAGGCGAAAGAGAGGUCAGAGCUUAGUCAU--------------UCUCUUAUUGUUGCCGUCUCUCUCGUUUGCAUUCGUAAGU
.........-..((((.(((.(((((((((((((.((((.(((((((((((.(........).).)--------------)))))).))))))).))))))).))))).).))))))).. ( -30.20)
>DroYak_CAF1 4395 115 + 1
AAACUA----AGUUGCUGAAAGAGAUGGAG-GAUGGCAGAUGAAAGAGAGGUCAGAGCUUAGUCAUUUACUUGCUGCCAUUCUCUUGUUGUUGUUGUCUCUUUCGACUGCAGUCGUAAAU
......----..((((.(((((((((((((-((((((((.((((.((.((((....))))..)).))))....))))))))))))..........)))))))))(((....))))))).. ( -37.50)
>consensus
AAACUACAA_AGUUGCUGAAAGAGAUGGAGAGAUUGCAGGCGAAAGAGAGGUCAGAGCUUAGUCAUU__CUUGCUG_CAUUCUCUUAUUGUUGCCGUCUCUUUCGUUUGCAUUCGUAAGU
.((((.....)))).................((.(((((((((((((((.(.(((.....((.....................)).....))).).))))))))))))))).))...... (-23.13 = -23.80 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:45 2006