Locus 2340

Sequence ID 2R_DroMel_CAF1
Location 8,550,019 – 8,550,131
Length 112
Max. P 0.618018
window3859

overview

Window 9

Location 8,550,019 – 8,550,131
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.08
Mean single sequence MFE -22.04
Consensus MFE -18.28
Energy contribution -18.04
Covariance contribution -0.24
Combinations/Pair 1.05
Mean z-score -1.53
Structure conservation index 0.83
SVM decision value 0.17
SVM RNA-class probability 0.618018
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8550019 112 - 20766785
ACGCAAAAUUAACUUCCGACAUUUGUCACGAAGGUUGGCAACACUCCACGUUUCCUUUUAC----CCACCCACUCAUU-UGGGUUUCCUCUCUC---AUUUUUGCGCAAAAUGUCAAAAU
.(((((((.........(((....)))..((((((.((.(((.......))).))....))----).(((((......-)))))))).......---..))))))).............. ( -20.70)
>DroSec_CAF1 25551 112 - 1
ACGCAAAAUAAACUUCCGACAUUUGUCAUGAAGGUUGGCAACACUCCACGCUUCCUUUUAC----CCGCCCACUCAUU-UGGGUUUCCUCUCUC---GUUUUUGCGCAAAAUGUCAAAAU
.(((((((.........(((....))).((((((..(((..........)))..)))))).----..(((((......-)))))..........---..))))))).............. ( -22.20)
>DroSim_CAF1 29175 112 - 1
ACGCAAAAUUAACUUCCGACAUUUGUCACGAAGGUUGGCAACACUCCACGCUUCCUUUUAC----CCGCCCACUCAUU-UGGGUUUCCUCUCUC---GUUUUUGCGCAAAAUGUCAAAAU
.(((((((.........(((....)))((((.((.((....))..))..............----..(((((......-)))))........))---))))))))).............. ( -23.10)
>DroEre_CAF1 14607 101 - 1
ACGCAAAAUGAACUUCCGACAUUUGUCACGAAGGUUGCCAACUCU---------------CCAUGCCACCCACUCAUU-UGGGUUUCCUCUCUC---GUUUUUGCGCAAAAUGUCAAAAU
.((((((((((.((((.(((....)))..))))............---------------.......(((((......-)))))........))---).))))))).............. ( -20.10)
>DroYak_CAF1 28739 120 - 1
ACGCAAAAUUAACUUCCGACAUUUGUCACGAAGGCUGCCAACUCCACUCGCUUCCUUUUGCCAGGCUACCCACUCAUUUUGGGUUUUCUCUCUCCGGGUUUUUGCGCAAAAUGUCAAAAU
.(((((((....((((.(((....)))..))))............((((((........)).(((..(((((.......)))))..)))......))))))))))).............. ( -24.10)
>consensus
ACGCAAAAUUAACUUCCGACAUUUGUCACGAAGGUUGGCAACACUCCACGCUUCCUUUUAC____CCACCCACUCAUU_UGGGUUUCCUCUCUC___GUUUUUGCGCAAAAUGUCAAAAU
.(((((((....((((.(((....)))..))))..................................(((((.......)))))...............))))))).............. (-18.28 = -18.04 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:22 2006