Locus 4527

Sequence ID X_DroMel_CAF1
Location 11,935,169 – 11,935,260
Length 91
Max. P 0.957229
window7442

overview

Window 2

Location 11,935,169 – 11,935,260
Length 91
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 71.96
Mean single sequence MFE -21.33
Consensus MFE -13.51
Energy contribution -13.32
Covariance contribution -0.19
Combinations/Pair 1.12
Mean z-score -1.84
Structure conservation index 0.63
SVM decision value 1.48
SVM RNA-class probability 0.957229
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11935169 91 + 22224390
CGAAGGCUGCUGCAACAGCAGCGGCCACAAAAAAAGUAAAAGGUCAUAAAAAU-------------------UUGAUUUUUUUUCAUAUUUAAACACCAAAAGCUAU----GCA
.((((((((((((....)))))))))...........(((((((((.......-------------------.))))))))))))......................----... ( -25.20)
>DroSec_CAF1 18340 92 + 1
CGAAGGCUGGUGCAACAGCAGCGGCCACAAAAAA-G-GGAACGUCAAUAAAAU-------------------UUAAAUUCUAUGCAUAUUUAAACAC-AGAAGUUACAUACGUA
....(((((.(((....))).)))))........-.-...((((.......((-------------------.(((.((((.((..........)).-)))).))).)))))). ( -16.51)
>DroSim_CAF1 9037 94 + 1
CGAAGGCUGGUGCAACAGCAGCGGCCACAAAAAAAGGGAAAGGCCAUUACAAU-------------------UUAAAUUUUAUGCAUAUUUAAACAC-AGAAGUUACAUACGUA
....(((((.(((....))).)))))((.......((......)).......(-------------------((((((.........)))))))...-.............)). ( -16.50)
>DroEre_CAF1 3041 113 + 1
CGGCGGCUGGUGCAACAGCAGCGGUCACAAAAGUGGGAAAAGGUCAUUCAAAUGAAGUUUUUUCUUUUCUGUUUUUUUUUUUUGCAUAUUUAAGCAC-AAAUGUAACAGUUGUA
.(((.((((.((...)).)))).)))((((....(..((((..((((....))))..))))..)....(((((.....(((.(((........))).-)))...))))))))). ( -27.10)
>consensus
CGAAGGCUGGUGCAACAGCAGCGGCCACAAAAAAAGGAAAAGGUCAUUAAAAU___________________UUAAAUUUUAUGCAUAUUUAAACAC_AAAAGUUACAUACGUA
....(((((.(((....))).)))))........................................................................................ (-13.51 = -13.32 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:18 2006