Locus 2104

Sequence ID X_DroMel_CAF1
Location 5,720,491 – 5,720,602
Length 111
Max. P 0.594386
window3422

overview

Window 2

Location 5,720,491 – 5,720,602
Length 111
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 94.59
Mean single sequence MFE -41.33
Consensus MFE -36.09
Energy contribution -36.65
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -1.56
Structure conservation index 0.87
SVM decision value 0.12
SVM RNA-class probability 0.594386
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5720491 111 - 22224390
GCCCAACAGGCCGCCGCGGCGGCAGCUGCCUCAUCCGAACGGCAGAAGCGUGCGGCCAACAAGGAUUACUAUCUGUCCUAUUGCGAGAACAGUCGCUAUGACUACAGCGAC
((......((((((((((((((...)))))((..((....))..)).))).))))))....(((((........)))))...)).......((((((........)))))) ( -40.60)
>DroSim_CAF1 2707 111 - 1
GCCCAACAGGCCGCCGCGGCGGCAGCUGCCUCAUCCGAACGGCAGAAGCGGACGGGCAACAAGGAUUACUAUCUGUCCUAUUGCGAGAACAGUCGCUAUGACUACAGCGAC
((((.....(((((....))))).(((((.((..((....))..)).)))).)))))....(((((........)))))............((((((........)))))) ( -40.50)
>DroEre_CAF1 2078 111 - 1
GCCCAACAAGCCGCCGCGGCGGCAGCUGCCUCAUCCGAGCGGCAGAAGCGGGCGGGCAACAAGGACUACUAUCUGUCCUAUUGCGAGAACAAUCGCUAUGACUACAGUGAC
((((.....(((((....))))).(((((.((....)))))))......))))..((((..(((((........))))).))))........(((((........))))). ( -43.90)
>DroYak_CAF1 1883 111 - 1
GCCCAACAGGCCGCCGCUGCGGCAGCUGCCUCAUCCGAGCGACAGAAGCGGGCGGGCAACAAGGACUACUAUCUGUCCUAUUGCGAGAACAAUCGCUAUGACUACAGCGAU
((((.....(((((....)))))..(((((((....))).).)))....))))..((((..(((((........))))).)))).......((((((........)))))) ( -40.30)
>consensus
GCCCAACAGGCCGCCGCGGCGGCAGCUGCCUCAUCCGAACGGCAGAAGCGGGCGGGCAACAAGGACUACUAUCUGUCCUAUUGCGAGAACAAUCGCUAUGACUACAGCGAC
((((.....(((((....)))))..(((((((....))..)))))....))))..((((..(((((........))))).)))).......((((((........)))))) (-36.09 = -36.65 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:21 2006