Locus 3446

Sequence ID X_DroMel_CAF1
Location 9,235,804 – 9,235,899
Length 95
Max. P 0.856281
window5648

overview

Window 8

Location 9,235,804 – 9,235,899
Length 95
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 88.53
Mean single sequence MFE -22.88
Consensus MFE -17.00
Energy contribution -17.62
Covariance contribution 0.62
Combinations/Pair 1.10
Mean z-score -2.18
Structure conservation index 0.74
SVM decision value 0.81
SVM RNA-class probability 0.856281
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9235804 95 + 22224390
AUAAUAAAGGGG---AGAAGAAGAUCCCAAAGGAGGCGGAAAAGUGGGCGGGAAAUGUCGGGUGAAAGA--UAUGUACGUGACAUUGCAGCCAAUCCGGG
.........(((---(........))))........((((......(((....(((((((.(((.....--....))).)))))))...)))..)))).. ( -25.60)
>DroSec_CAF1 18618 94 + 1
AUAAUAAAGGGG---AGAAGAAGAUCCCA-AGGAGGCGGAAAAGUGGGCGGAAAAUGUCGGGUGAAAGA--UAUGUACGUGACAUUGCAGCCAAUCCGGG
.........(((---(........)))).-......((((......(((....(((((((.(((.....--....))).)))))))...)))..)))).. ( -25.60)
>DroEre_CAF1 21388 97 + 1
AUAAUAAAUGGG--GAGUAGAGGAUCCCA-CGGAGGCGGAAAAGUGGGCGGGAAAAGUCGGGCAAAAUAUAUAUGUACGUGACAUAGCAGCCAAUCCGGG
..........((--((........)))).-(((((((.........(((.......)))............(((((.....)))))...)))..)))).. ( -21.10)
>DroYak_CAF1 19605 97 + 1
AUAAUAAAGGGGAGAAGAAGAAAAGCUCA-CGAAGGCGGAAAAGUGGGCGGGAAAAGUCGGGUGAACGA--UAUGUACGUGACAUUGCAGCCAAUCCGGG
..........(((...........(((((-(............)))))).((.((.((((.(((.....--....))).)))).))....))..)))... ( -19.20)
>consensus
AUAAUAAAGGGG___AGAAGAAGAUCCCA_AGGAGGCGGAAAAGUGGGCGGGAAAAGUCGGGUGAAAGA__UAUGUACGUGACAUUGCAGCCAAUCCGGG
.........(((.............)))........((((......(((....(((((((.(((...........))).)))))))...)))..)))).. (-17.00 = -17.62 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:43 2006