Locus 90

Sequence ID X_DroMel_CAF1
Location 349,931 – 350,031
Length 100
Max. P 0.784784
window120

overview

Window 0

Location 349,931 – 350,031
Length 100
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 77.46
Mean single sequence MFE -40.08
Consensus MFE -29.83
Energy contribution -31.20
Covariance contribution 1.37
Combinations/Pair 1.22
Mean z-score -1.64
Structure conservation index 0.74
SVM decision value 0.57
SVM RNA-class probability 0.784784
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 349931 100 + 22224390
U-------------CAACUGCCCGUUCGCCGCUCACACCCGUGGGCCAUUCCAAUCACUAGAGUGGGUGGAGUGUGAGAUGGGCGCCGAAAGUGCAUACAUUACAUGCCCAAG
.-------------.....((((((((((.((((((....)))))).((((((..(((....)))..)))))))))).))))))(((....).)).................. ( -37.70)
>DroSec_CAF1 10117 98 + 1
U-------------CAACUGCCCGUUCGCCGCUGACACUCGUGGGCCAUUCCAAUCACUA--GUGGGUGGAGUGUGAGAUGGGCGUCCAAAGUGGAUAUAUUACAUGCCCAAG
.-------------.....((((((((((.(((.((....)).))).((((((..((...--.))..)))))))))).))))))((((.....))))................ ( -31.40)
>DroEre_CAF1 4703 100 + 1
U-------------CCACUGCCCAUCUGCCGCCCACACCCGCGGACCAUUCCAACCACCCGGGUGGAUGGAGUGCGAGAUGGGCGCCCAAAGUGCAUGCACUGCAUGCCCAAG
.-------------.....((((((((.((((........)))).((((((((.((((....)))).))))))).))))))))).......(.((((((...)))))).)... ( -45.70)
>DroYak_CAF1 4593 113 + 1
CCACUGCCCCCUGCCCACUGCCCGUCUGCCGCCCACACCCGCGGGCGAGUCCAAUGCCUCGGGUGGACGGAGUGCGAGAUGGGCGCCCAAAGUGGAUGCAUUACAGCCCCAAG
(((((......(((((((((((((((..((((((.(....).))))(((........))).))..)))))...)).)).)))))).....)))))..((......))...... ( -45.50)
>consensus
U_____________CAACUGCCCGUCCGCCGCCCACACCCGCGGGCCAUUCCAAUCACUAGGGUGGAUGGAGUGCGAGAUGGGCGCCCAAAGUGCAUACAUUACAUGCCCAAG
...................((((((((((.((((((....)))))).((((((.((((....)))).))))))))).))))))).......(.(((((.....))))).)... (-29.83 = -31.20 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:59 2006