Locus 1854

Sequence ID 3L_DroMel_CAF1
Location 5,214,638 – 5,214,730
Length 92
Max. P 0.592075
window2891

overview

Window 1

Location 5,214,638 – 5,214,730
Length 92
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 82.64
Mean single sequence MFE -27.78
Consensus MFE -21.17
Energy contribution -23.12
Covariance contribution 1.95
Combinations/Pair 1.21
Mean z-score -1.49
Structure conservation index 0.76
SVM decision value 0.12
SVM RNA-class probability 0.592075
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5214638 92 - 23771897
CCGCCCACCGCUGAGCCAGCAGCAUUAAAUUGGUGGUGGCCAAGAAAAUUGUUCAGCA-GGGAUAAGCUUUCUGCUGUUGGCUUCUGCCACAC
.........((.((((((((((((.....(((((....)))))((((.((((((....-.))))))..))))))))))))))))..))..... ( -32.50)
>DroSec_CAF1 79564 91 - 1
CCGCCCACCGCUGAGCCAGCAGCAUUAAAUUGGUG-UGGCCAAGAAAAUUGUUCAGCA-GGGAUAAGCUUUCAGCUGUUGGCUUCUGCCACAC
.........((.(((((((((((......((((..-...))))((((.((((((....-.))))))..)))).)))))))))))..))..... ( -32.00)
>DroSim_CAF1 75890 90 - 1
CCGCCCACCGCUGAGCCAGCAGCAUUAAAUUGGUG-UGGCCAA-AAAAUUGUUCAGCA-GGGAUAAGCUUUCAGCUGUUGGCUUCUGCCACAC
.........((.(((((((((((......((((..-...))))-....((((((....-.)))))).......)))))))))))..))..... ( -28.60)
>DroEre_CAF1 80524 74 - 1
CCGCCCACCGCUGAGCCAGCAGCAUUAAAUUGGUG-UGGCCAGGAAAAUUGUUCAGCG-AGGAUAAGCUUUCAGCU-----------------
..((......(((.((((.((.((......)).))-)))))))((((.((((((....-.))))))..)))).)).----------------- ( -20.40)
>DroYak_CAF1 81253 91 - 1
CCGCCCACCGCUGAGCCAGCAGCAUUAAAUUGGUG-UGGCCAAGAAAAUUGUUCAGCA-GGGAUAAGCUUUCAGCUGUUGGCUUCUGCCACAC
.........((.(((((((((((......((((..-...))))((((.((((((....-.))))))..)))).)))))))))))..))..... ( -32.00)
>DroAna_CAF1 78619 85 - 1
CCCCUCCCUGCUGAGCUGG---CACUAAAUUGGUG-UGGCCAAGAAAAUUGUUUGGCUUUGGAUUAGCUUUCGGUUGCUGAUUUUGGCU----
.........((..(....(---((((.....))))-)(((((((.......)))))))...(((((((........))))))))..)).---- ( -21.20)
>consensus
CCGCCCACCGCUGAGCCAGCAGCAUUAAAUUGGUG_UGGCCAAGAAAAUUGUUCAGCA_GGGAUAAGCUUUCAGCUGUUGGCUUCUGCCACAC
.........((.(((((((((((......(((((....)))))((((.((((((......))))))..)))).)))))))))))..))..... (-21.17 = -23.12 +   1.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:21 2006