Locus 5358

Sequence ID X_DroMel_CAF1
Location 13,953,518 – 13,953,631
Length 113
Max. P 0.876913
window8694

overview

Window 4

Location 13,953,518 – 13,953,631
Length 113
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.28
Mean single sequence MFE -23.17
Consensus MFE -22.71
Energy contribution -22.77
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -1.72
Structure conservation index 0.98
SVM decision value 0.90
SVM RNA-class probability 0.876913
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13953518 113 + 22224390
-------UUUGUCAGCAUAAAUCGAUUUAUUGGGCUCCACUUCUUGCCCCUAAAUUGUUGACUUUUCAGCAUUCAUUUGUGUUAACUCGUUUCGAUUAAAAUUGUUGAUAUUGAUACGGU
-------...((.(((((((((.((((((..((((..........)))).))))))(((((....)))))....))))))))).))((((.(((((.............))))).)))). ( -24.92)
>DroSec_CAF1 4965 113 + 1
-------UUUGUCAGCAUAAAUCGAUUUAUUGGGCUCCACUUCUUGCCUCUAAAUUGUUGACUUUUCAGCAUUCAUUUGUGUUAACUCGUUUCGAUUAAAAUUGUUGAUAUUGAUACGGU
-------...((.(((((((((.((((((..((((..........)))).))))))(((((....)))))....))))))))).))((((.(((((.............))))).)))). ( -23.02)
>DroSim_CAF1 5366 113 + 1
-------UUUGUCAGCAUAAAUCGAUUUAUUGGGCUCCACUUCUUGCCCCUAAAUUGUUGACUUUUCAGCAUUCAUUUGUGUUAACUCGUUUCGAUUAAAAUUGUUGAUAUUGAUACGGU
-------...((.(((((((((.((((((..((((..........)))).))))))(((((....)))))....))))))))).))((((.(((((.............))))).)))). ( -24.92)
>DroYak_CAF1 5352 120 + 1
AUUUUUUUUUGUCAGCAUAAAUCGAUUUAUUGGUCUUCACUUCUUGCCCCUAAAUUGUUGACUUUUCAGCAUUCAUUUGUGUUAACUCGUUUCGAUUAAAAUUUUUGAUAUUGAUACGGU
..........((.(((((((((.((((((..(((...........)))..))))))(((((....)))))....))))))))).))((((.(((((.............))))).)))). ( -19.82)
>consensus
_______UUUGUCAGCAUAAAUCGAUUUAUUGGGCUCCACUUCUUGCCCCUAAAUUGUUGACUUUUCAGCAUUCAUUUGUGUUAACUCGUUUCGAUUAAAAUUGUUGAUAUUGAUACGGU
..........((.(((((((((.((((((..((((..........)))).))))))(((((....)))))....))))))))).))((((.(((((.............))))).)))). (-22.71 = -22.77 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:01 2006