Locus 5068

Sequence ID X_DroMel_CAF1
Location 13,259,102 – 13,259,202
Length 100
Max. P 0.933004
window8237

overview

Window 7

Location 13,259,102 – 13,259,202
Length 100
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 82.96
Mean single sequence MFE -22.90
Consensus MFE -19.32
Energy contribution -19.12
Covariance contribution -0.20
Combinations/Pair 1.10
Mean z-score -2.03
Structure conservation index 0.84
SVM decision value 1.23
SVM RNA-class probability 0.933004
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13259102 100 + 22224390
UAAAAAUACGCGCAUAUAAAUCGCUUCAUUUUUAUGCACAAUUACGCGGGGGAGACAGUAACCUUGGCUUCCCAUUUUCAUU------UUCAUUUUCAGUUCCAUG------------
........((((((((.((((......)))).)))))........)))((((((.(((.....))).)))))).........------..................------------ ( -17.10)
>DroSec_CAF1 4756 106 + 1
UAAAAAUACGCGCAUAUAAAUCGCUUCAUUUUUAUGCGCAAUUACGCGGGGGAGACAGUAACCUUGGCUUCCCAUUUUCAUUUUCAUUUUCAUUUUCAGUCCCAUG------------
.........(((((((.((((......)))).))))))).........((((((.(((.....))).)))))).................................------------ ( -22.00)
>DroSim_CAF1 4784 100 + 1
UAAAAAUACGCGCAUAUAAAUCGCUUCAUUUUUAUGCGCAAUUACGCGGGGGAGACAGUAACCUUGGCUUCCCAUUUUCAUU------UUCAUUUUCAGUCCCAUG------------
.........(((((((.((((......)))).))))))).........((((((.(((.....))).)))))).........------..................------------ ( -22.00)
>DroEre_CAF1 6704 94 + 1
UAAAAAUACGCGCAUAUAAAUCGCUUCAUUUUUAUGCGCAAUUACGCGGGGGAGACAGUAACCUUGGCUUUUCAGUCCCAUC------CCCA------UCCCCAUU------------
.........(((((((.((((......)))).))))))).........(((((............((((....)))).....------....------)))))...------------ ( -22.00)
>DroYak_CAF1 5074 108 + 1
UAAAAAUACGCGCAUAUAAAUCGCUUCAUUUUUAUGCGCAAUUACGCGGGGGAGACAGUAACCUUGGCUUCUCAGUCCCAUU------CCUGUU----UCCCCAUUUCUCCAUUUCUC
.........(((((((.((((......)))).))))))).........((((((((((.......((((....)))).....------.)))))----)))))............... ( -31.42)
>consensus
UAAAAAUACGCGCAUAUAAAUCGCUUCAUUUUUAUGCGCAAUUACGCGGGGGAGACAGUAACCUUGGCUUCCCAUUUUCAUU______UUCAUUUUCAGUCCCAUG____________
.........(((((((.((((......)))).))))))).........((((((.(((.....))).))))))............................................. (-19.32 = -19.12 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:16 2006