Locus 8390

Sequence ID X_DroMel_CAF1
Location 20,824,087 – 20,824,201
Length 114
Max. P 0.618597
window13778

overview

Window 8

Location 20,824,087 – 20,824,201
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.43
Mean single sequence MFE -21.33
Consensus MFE -14.66
Energy contribution -14.72
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -2.00
Structure conservation index 0.69
SVM decision value 0.17
SVM RNA-class probability 0.618597
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20824087 114 + 22224390
GAAAUCACAUAUGCGCAAAUAAAUAAAAAUGAAAAUUCAA-----GAAGAGCUCAAAA-AAAAAAAGGGAAUUUCUUCUUUAACUGUUGAUGCCGAUAAGCAUUAGCGUGGGGUAUAUGG
.......(((((((.(......................((-----(((((.(((....-.......)))....))))))).....((((((((......))))))))...).))))))). ( -25.30)
>DroSec_CAF1 1302 109 + 1
GAAAUCACAUAUGCGCAAAUAAAUAAAAAUGAAAAUUCAA-----GAAGAGCUGAAAA-AA-----AGGAAUUUCUUCUUUAACUGUUGAUGCCGAUAAGCAUUAGCGUGGGGUAUAUGG
.......(((((((.(......................((-----(((((.((.....-..-----.))....))))))).....((((((((......))))))))...).))))))). ( -24.10)
>DroEre_CAF1 18002 103 + 1
GAAAUCACAUAUGCGCAAAUAAAUAAAAAUGAAAAUUCAA-----GAAGAGCUGAAAA-AA-----AGGAAUUUCUUCUUUAACUGUUGAUACCGAUAAGCAUUAGCGUGGGGU------
....((((..((((........................((-----(((((.((.....-..-----.))....)))))))....(((((....))))).))))....))))...------ ( -13.80)
>DroYak_CAF1 19678 108 + 1
GAAAUCACAUAUGCGCAAAUAAAUAAAAAUGAAAAUUCAAGAGAAGAAGAGCUGAAAAAAA-----AGGAAUCUCUUCUUUAACUGUUGAUGCCGAUAAGCAUUAGCGUGGGG-------
....((((..................................(((((((((((........-----))....)))))))))....((((((((......))))))))))))..------- ( -22.10)
>consensus
GAAAUCACAUAUGCGCAAAUAAAUAAAAAUGAAAAUUCAA_____GAAGAGCUGAAAA_AA_____AGGAAUUUCUUCUUUAACUGUUGAUGCCGAUAAGCAUUAGCGUGGGGU______
....((((.....................................((((((.....................)))))).......((((((((......))))))))))))......... (-14.66 = -14.72 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:46 2006