Locus 1487

Sequence ID X_DroMel_CAF1
Location 4,419,896 – 4,420,011
Length 115
Max. P 0.740984
window2381

overview

Window 1

Location 4,419,896 – 4,420,011
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.81
Mean single sequence MFE -35.55
Consensus MFE -28.00
Energy contribution -27.56
Covariance contribution -0.44
Combinations/Pair 1.17
Mean z-score -1.65
Structure conservation index 0.79
SVM decision value 0.45
SVM RNA-class probability 0.740984
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4419896 115 - 22224390
-----GAAUCUGAAACCGAAUCCCGAUCCCGAUUCUGGGCCGCGGGCUUCGGAUAGUGGGUGCUCGAUAAGCAGGGUAAAUAUUGAAUCAACUGAACCGCAAUAAACCCAAACAAACCCG
-----..........(((((.((((..((((....))))...)))).))))).....(((((((.....))).((((...(((((..((....))....))))).))))......)))). ( -36.40)
>DroSec_CAF1 22442 120 - 1
GCCGUGAAUCUGGAACCGAAUCCCGAUCCCGAUUCUGGGCCGCGGGCUUCGGAUAGUGGGUGCUCGAUAAGCUGGGUAAAUAUUGAAUCAACUGAACCGCAAUAAACCCAAACAAACCCG
.(((......)))..(((((.((((..((((....))))...)))).))))).....(((((((.....)))(((((...(((((..((....))....))))).))))).....)))). ( -37.40)
>DroSim_CAF1 23757 111 - 1
---------CUGGAACCGAAUCCCGAUCCCGAUUCUGGGCCGCGGGCUUCGGAUAGUGGGUGCUCGAUAAGCUGGGUAAAUAUUGAAUCAACUGAACCGCAAUAAACCCAAACAAACCCG
---------......(((((.((((..((((....))))...)))).))))).....(((((((.....)))(((((...(((((..((....))....))))).))))).....)))). ( -36.50)
>DroEre_CAF1 23423 114 - 1
GCCGUGAAUCUGGAACCGAAUCC------CGAUUCUGGGCCGCGGGUUUUGGAUAGUGGGUGCUCGAUAAGCAGGGUAAAUAUUGAAUCAACUGAACCGCAAUAAGCCCAAACAAACCCG
(((..(((((.(((......)))------.)))))..)))..(((((((.(.....(((((((((........))))...(((((..((....))....))))).)))))..)))))))) ( -34.80)
>DroYak_CAF1 23081 108 - 1
------AAUCUGGAACUGAAUCC------CGAUUCUGGGCCGCGGGUUCCGGAUAGUGGGUGCUCGAUAAGCAGGGUAAAUAUUGAACCAACUGAACCGCAAUAAACCCAAACAAACCCG
------.(((((((((((...((------((....))))...).))))))))))...(((((((.....))).((((...(((((..............))))).))))......)))). ( -32.64)
>consensus
_____GAAUCUGGAACCGAAUCCCGAUCCCGAUUCUGGGCCGCGGGCUUCGGAUAGUGGGUGCUCGAUAAGCAGGGUAAAUAUUGAAUCAACUGAACCGCAAUAAACCCAAACAAACCCG
.......(((((((.(((((((........))))).))(((...))))))))))...(((((((.....))).((((...(((((..((....))....))))).))))......)))). (-28.00 = -27.56 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:44 2006