Locus 8210

Sequence ID X_DroMel_CAF1
Location 20,406,108 – 20,406,209
Length 101
Max. P 0.506488
window13491

overview

Window 1

Location 20,406,108 – 20,406,209
Length 101
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 86.96
Mean single sequence MFE -16.72
Consensus MFE -11.56
Energy contribution -11.36
Covariance contribution -0.20
Combinations/Pair 1.17
Mean z-score -1.69
Structure conservation index 0.69
SVM decision value -0.05
SVM RNA-class probability 0.506488
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20406108 101 + 22224390
GCGAAAUUAAAAUGCGCAAAAAUAACGCAUAUAAAAUAAUAAAAAAAACACACUUCAGUGCGGAAAAUGCACGAGCAGGCAUAAUUAAUUGAUG--CUGAGAG
((.........(((((.........)))))...........................(((((.....)))))..)).(((((.........)))--))..... ( -16.30)
>DroSec_CAF1 98919 94 + 1
GCGAAAUUAAAAUGCGCAAAAAUAACGCAUAUAA---------AAAAACAUACUUCAGUGCGGAAAAUGCACGAGCAGACAUAAUUAAUUGAUGCGCUGAGAG
...........(((((.........)))))....---------..........(((((((((.....(((....)))..((........)).))))))))).. ( -17.70)
>DroSim_CAF1 52743 94 + 1
GCGAAAUUAAAAUGCGCAAAAAUAACGCAUAUAA---------AAAAACACACUUCAGUGCGGAAAAUGCACGAGCAGACAUAAUUAAUUGAUGCGCUGAGAG
...........(((((.........)))))....---------..........(((((((((.....(((....)))..((........)).))))))))).. ( -17.70)
>DroEre_CAF1 53638 88 + 1
GCGAAAUUAAAAUGCGCAAAAAUAAUGCAUAUAA-------------AUAUACUUCAGUGCGGAAAAUGCACGCGCAGACAUAAUUAAUUGGUG--CUGAAAG
(((.((((((..(((((....(((.....)))..-------------..........(((((.....)))))))))).......))))))..))--)...... ( -16.60)
>DroYak_CAF1 45455 88 + 1
GCGAAAUUAAUAUGCACAAAAAUAAUGCAUAUAA-------------AUAUACUUCGGGGCGGAAAAUGCACGCGCAGACAUAAUUAAUUGAUG--CUGAAAG
(((..(((.(((((((.........))))))).)-------------))...(....).(((.....))).)))(((..((........)).))--)...... ( -15.30)
>consensus
GCGAAAUUAAAAUGCGCAAAAAUAACGCAUAUAA_________AAAAACAUACUUCAGUGCGGAAAAUGCACGAGCAGACAUAAUUAAUUGAUG__CUGAGAG
((.........(((((.........)))))...........................(((((.....)))))..))........................... (-11.56 = -11.36 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:29 2006