Locus 5592

Sequence ID X_DroMel_CAF1
Location 14,437,032 – 14,437,153
Length 121
Max. P 0.969458
window9083 window9084

overview

Window 3

Location 14,437,032 – 14,437,131
Length 99
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 94.86
Mean single sequence MFE -21.19
Consensus MFE -20.34
Energy contribution -20.12
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.49
Structure conservation index 0.96
SVM decision value 1.64
SVM RNA-class probability 0.969458
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14437032 99 + 22224390
CGAAAAGAUAGGUUGCAACUUCAAGGGUGUUAAAAGGUGAUUCAUAUGCAACAACAA-----AUAAUAAAUUGUUGUGUAAAAGUCAAAAACACCUGCCGAUUA
..........(((...........(((((((......(((((..((((((((((...-----........))))))))))..)))))..))))))))))..... ( -20.70)
>DroSec_CAF1 16250 103 + 1
CGAA-AGAUAGGUUGAAACUUCAAGGGUGUUAAAAGGUGAUUCAUAUGCAAUAACAAAAUAUAUAAUAAAUUGUUGUGUAAAAGUCAAAAACACCUGCCGAUUA
(...-.)...((((((....))).(((((((......(((((..((((((((((................))))))))))..)))))..))))))))))..... ( -20.49)
>DroSim_CAF1 27325 103 + 1
CGAA-AGAUAGGUUGAAACUUCAAGGGUGUUAAAAGGUGAUUCAUAUGCAACAACAAAAUAUAUAAUAAAUUGUUGUGUAAAAGUCAAAAACACCUGCCGAUUA
(...-.)...((((((....))).(((((((......(((((..((((((((((................))))))))))..)))))..))))))))))..... ( -22.39)
>consensus
CGAA_AGAUAGGUUGAAACUUCAAGGGUGUUAAAAGGUGAUUCAUAUGCAACAACAAAAUAUAUAAUAAAUUGUUGUGUAAAAGUCAAAAACACCUGCCGAUUA
..........(((((......)).(((((((......(((((..((((((((((................))))))))))..)))))..))))))))))..... (-20.34 = -20.12 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 14,437,057 – 14,437,153
Length 96
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 93.40
Mean single sequence MFE -19.96
Consensus MFE -18.54
Energy contribution -18.66
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.34
Structure conservation index 0.93
SVM decision value 1.23
SVM RNA-class probability 0.933740
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14437057 96 + 22224390
GGUGUUAAAAGGUGAUUCAUAUGCAACAACAA-----AUAAUAAAUUGUUGUGUAAAAGUCAAAAACACCUGCCGAUUAAUAAUAAUAAUGGAAACUUGGG
((((((......(((((..((((((((((...-----........))))))))))..)))))..))))))..(((((((....))))...(....).))). ( -19.80)
>DroSec_CAF1 16274 101 + 1
GGUGUUAAAAGGUGAUUCAUAUGCAAUAACAAAAUAUAUAAUAAAUUGUUGUGUAAAAGUCAAAAACACCUGCCGAUUAAUAAUAAUAAUGGGAGCUUGUU
((((((......(((((..((((((((((................))))))))))..)))))..))))))..((.((((.......)))).))........ ( -19.09)
>DroSim_CAF1 27349 101 + 1
GGUGUUAAAAGGUGAUUCAUAUGCAACAACAAAAUAUAUAAUAAAUUGUUGUGUAAAAGUCAAAAACACCUGCCGAUUAAUAAUAAUAAUGGGAGCUUGUU
((((((......(((((..((((((((((................))))))))))..)))))..))))))..((.((((.......)))).))........ ( -20.99)
>consensus
GGUGUUAAAAGGUGAUUCAUAUGCAACAACAAAAUAUAUAAUAAAUUGUUGUGUAAAAGUCAAAAACACCUGCCGAUUAAUAAUAAUAAUGGGAGCUUGUU
((((((......(((((..((((((((((................))))))))))..)))))..))))))..((.((((.......)))).))........ (-18.54 = -18.66 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:48 2006