Locus 3528

Sequence ID 2R_DroMel_CAF1
Location 11,802,022 – 11,802,142
Length 120
Max. P 0.778993
window5742

overview

Window 2

Location 11,802,022 – 11,802,142
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -38.77
Consensus MFE -37.20
Energy contribution -37.53
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.96
SVM decision value 0.55
SVM RNA-class probability 0.778993
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11802022 120 + 20766785
GAAAAACUCCUGAAGGAUGUGCCAGUGAAGCAGUCCGCAUUUACUCCGAUGCUGGAACUCUUCGUUCUGCUGCACAAAUACCAGGUGAAGCUUAGCGAGGAAACAUUUGAGCAGGUUAUG
........((((..((((((.((((((..(.(((........))).)..))))))...((((((((..(((.(((.........))).)))..)))))))).))))))...))))..... ( -34.30)
>DroSec_CAF1 6116 120 + 1
GAACGACUCCUGAAGGAUGUGCCAGUGAAGCAGUCUGCAUUUACUCCGAUGUUGGAACUCUUCGUUCUGCUGCACAAAUAUCAGGUGCAGCUUAGCGAGGAAACAUUUGAGCAGGUGAUG
......(.((((..((((((....(((((((.....)).)))))((((....))))..((((((((..(((((((.........)))))))..)))))))).))))))...)))).)... ( -41.00)
>DroSim_CAF1 6112 120 + 1
GAAAAACUCCUGAAGGAUGUGCCAGUGAAGCAGUCCGCAUUUACUCCGAUGCUGGAACUCUUCGUUCUGCUGCACAAAUACCAGGUGCAGCUUAGCGAGGAAACAUUUGACCAGGUGAUG
......(.((((..((((((.((((((..(.(((........))).)..))))))...((((((((..(((((((.........)))))))..)))))))).))))))...)))).)... ( -41.00)
>consensus
GAAAAACUCCUGAAGGAUGUGCCAGUGAAGCAGUCCGCAUUUACUCCGAUGCUGGAACUCUUCGUUCUGCUGCACAAAUACCAGGUGCAGCUUAGCGAGGAAACAUUUGAGCAGGUGAUG
........((((..((((((....(((((((.....)).)))))((((....))))..((((((((..(((((((.........)))))))..)))))))).))))))...))))..... (-37.20 = -37.53 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:40 2006