Locus 3839

Sequence ID 3R_DroMel_CAF1
Location 10,472,657 – 10,472,756
Length 99
Max. P 0.535879
window6151

overview

Window 1

Location 10,472,657 – 10,472,756
Length 99
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 82.71
Mean single sequence MFE -34.40
Consensus MFE -23.79
Energy contribution -25.23
Covariance contribution 1.45
Combinations/Pair 1.13
Mean z-score -1.56
Structure conservation index 0.69
SVM decision value 0.00
SVM RNA-class probability 0.535879
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10472657 99 + 27905053
AUUA------AAGCCGGAGUGCAGCCAAUGCUGUUGUAGGCAGUAGGGCGAAUCCACUGAAAAGGACUCGUUCUCACUCAGAGUGUCCAAGCUGCGUCUGCAGGC
....------..((((.((((((((...((((((.....))))))((((((.(((........))).))...(((.....))).))))..)))))).)).).))) ( -33.60)
>DroSec_CAF1 18612 99 + 1
AUUA------AAGCCGGAGUGCAGCCAAUGCUGUUGUAGGCAGUAGGGCGAAUCCACCGAAAAGGACUCGUUCUCACUCAGAGUGUCCAGGCUGCGUUUGCAGGC
....------..(((.((((((((((..((((((.....))))))((((((.(((........))).))...(((.....))).)))).))))))))))...))) ( -35.70)
>DroSim_CAF1 19350 99 + 1
AUUA------AAGCCGGAGUGCAGCCAAUGCUGUUGUAGGCAGUAGGGCGAAUCCACUGAAAAGGACUCGUUCUCACUCAGAGUGUCCAGGCUGCGUUUGCAGGC
....------..(((.((((((((((..((((((.....))))))((((((.(((........))).))...(((.....))).)))).))))))))))...))) ( -35.70)
>DroEre_CAF1 18852 99 + 1
CUUC------CAGCCAGAGUGCAGCCAAUGCUGUUGUAGGCAGUAGGGCGAGUCCACUGAAAAGGAUUCGUUCUCACUCAGGGUGUCCAAGCUGCGUUUGCAGGC
....------((.((.(((((.......((((((.....))))))((((((((((........)))))))))).))))).)).))......((((....)))).. ( -35.60)
>DroWil_CAF1 19741 97 + 1
CUUGCCCGAGGAGGCGGAGUGUAGCCAAUGCUGUUGCAGACAAUAGGGCACAUCCGACAAAAUGGUUUCAUUCUCGCUGCUUGU---UAGACAGCGUUUA-----
...(((......)))((((((.(((((...((((((....))))))((.....)).......))))).))))))(((((((...---.)).)))))....----- ( -27.90)
>DroYak_CAF1 19051 99 + 1
CUUA------AAGCCGGAAUGCAGCCAAUGCUGUUGUAGGCAGUAGGGCGAAUCCACUAAAAAGGAUUCGUUCUCACUCAGGGUGUCCAAGCUGCGUUUGCAGGC
....------..(((.(((((((((...((((((.....))))))((((((((((........)))))))))).(((.....))).....)))))))))...))) ( -37.90)
>consensus
AUUA______AAGCCGGAGUGCAGCCAAUGCUGUUGUAGGCAGUAGGGCGAAUCCACUGAAAAGGACUCGUUCUCACUCAGAGUGUCCAAGCUGCGUUUGCAGGC
............(((.(((((((((...((((((.....))))))((((((.(((........))).)))))).(((.....))).....)))))))))...))) (-23.79 = -25.23 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:21 2006