Locus 3713

Sequence ID X_DroMel_CAF1
Location 9,889,469 – 9,889,577
Length 108
Max. P 0.990352
window6085

overview

Window 5

Location 9,889,469 – 9,889,577
Length 108
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 79.69
Mean single sequence MFE -23.19
Consensus MFE -15.49
Energy contribution -18.05
Covariance contribution 2.56
Combinations/Pair 1.19
Mean z-score -2.59
Structure conservation index 0.67
SVM decision value 2.21
SVM RNA-class probability 0.990352
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9889469 108 + 22224390
AACAGCCACCAUCGAUAGCAGUUCAGAAACAACACCCACCCAAAUAUCAACCACAAUUAGCAGUGGUGCAAUUAGUGGUCAUAUUGAUGGUAGCAUCAAUCUGAACAC
....((.((((((((((...(((....))).....((((..........(((((........))))).......))))...)))))))))).)).............. ( -26.03)
>DroSec_CAF1 20743 108 + 1
AACAGUCACCACCGACAGCAGUUCAGAAACUAAACCCACCCAAAUAUCAACCACAAUUAGCAGUGGUGCAAUUAGUGGGCAUAUUGAUGGCAGCAUCAAUCUGAACAC
....(((......)))....(((((((.......(((((..........(((((........))))).......)))))....((((((....))))))))))))).. ( -30.73)
>DroEre_CAF1 29402 105 + 1
AACAGCCAC---CGGCAACAGUUCGGAAACUACACGCACCCAAACAUCCACCACAAUUAGCAGUGACACAAUUAGUGAGCCCAUUGAUGGCAGCAUCAAUCUGAACAC
....(((..---.)))....(((((((........((..............(((........))).(((.....))).))...((((((....))))))))))))).. ( -22.20)
>DroYak_CAF1 13278 90 + 1
AACAGCCAC---CGGCAACAGUUCCGAAACUACACCCACCCAAACAUUAACCACA---------------AUUAGUGAGCCUAUUGAUGGCAGCCCCAAUUUGAGCAC
....(((..---.)))....((((.((.................((((((.....---------------.)))))).(((.......)))........)).)))).. ( -13.80)
>consensus
AACAGCCAC___CGACAACAGUUCAGAAACUACACCCACCCAAACAUCAACCACAAUUAGCAGUGGUGCAAUUAGUGAGCAUAUUGAUGGCAGCAUCAAUCUGAACAC
....(((......)))....(((((((.......(((((..........(((((........))))).......)))))....((((((....))))))))))))).. (-15.49 = -18.05 +   2.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:22 2006