Locus 4725

Sequence ID 3R_DroMel_CAF1
Location 12,404,720 – 12,404,824
Length 104
Max. P 0.737647
window7761

overview

Window 1

Location 12,404,720 – 12,404,824
Length 104
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 88.31
Mean single sequence MFE -25.81
Consensus MFE -20.47
Energy contribution -21.36
Covariance contribution 0.89
Combinations/Pair 1.12
Mean z-score -2.55
Structure conservation index 0.79
SVM decision value 0.44
SVM RNA-class probability 0.737647
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12404720 104 + 27905053
CAUUGAACAGAAAAAGCAGCUUCUUUUUGCGGAAAUCGGAGAUCGACAUUAUUGUGUUGGUUUUUUUUUUUGUGUGUUUGAUUUACCGCUGGUUGUUUUCUUUA
........(((.(((((((((.......(((((((((((((((((((((....)))))))))))..............)))))).)))).))))))))).))). ( -26.13)
>DroSec_CAF1 3859 103 + 1
CAUUGAACAGAAAAAGCAGCUUCUUUUUGCGGAAAUCGGAGAUCGACAUUAUUGUGUUGGUUUUU-UUUUUGUGUGUUUGAUUUACCGCUGGUUGUUUUCUUUA
........(((.(((((((((.......(((((((((((((((((((((....))))))))))).-............)))))).)))).))))))))).))). ( -26.21)
>DroSim_CAF1 3462 101 + 1
CAUUGAACAGAAAAAGCAGCUUCUUUUUGCGGAAAUCGGAGAUCGACAUUAUUGUGUUGGUUUU---UUUUGUGUGUUUGAUUUACCGCUGGUUGUUUUCUUUA
........(((.(((((((((.......(((((((((((((((((((((....)))))))))))---...........)))))).)))).))))))))).))). ( -26.40)
>DroEre_CAF1 4070 99 + 1
CAUUGAACAGAAAAAGCAGCUUCUUUUUGCGGAAAUCGGAGAUCGACAUUAUUGUGUUGGUUUUA-UUUCU---C-UUUGAUUUACCGCUGGUUGUUUUCUUUA
........(((.(((((((((.......(((((((((((((((((((((....))))))).....-....)---)-)))))))).)))).))))))))).))). ( -28.30)
>DroYak_CAF1 3988 100 + 1
CAUUGAACAGAAAAAGCAGCUUCUUUUUGCGGAAAUCGGAGAUCGACAUUAUUGUGUUGGUUUUU-UUUUU---CGUUUGAUUUAUCGCUGGUUGUUUUCUUUA
........((((((..((((....((..(((((((..((((((((((((....))))))))))))-.))))---)))..))......))))....))))))... ( -25.30)
>DroAna_CAF1 3915 88 + 1
CAUUGAACAGGAAGAGCAGCUUCUUUUUGCGGAAAUCGGAGAUCGACAUUGUUGUGUUGUUUUUC-UUU---------------AUUUCGGGGCGUUUUCCUUA
........(((((((((.((........)).(((((.(((((.((((((....))))))....))-)))---------------)))))...)).))))))).. ( -22.50)
>consensus
CAUUGAACAGAAAAAGCAGCUUCUUUUUGCGGAAAUCGGAGAUCGACAUUAUUGUGUUGGUUUUU_UUUUU___UGUUUGAUUUACCGCUGGUUGUUUUCUUUA
........(((.(((((((((.......(((((((((((((((((((((....)))))))))))..............)))))).)))).))))))))).))). (-20.47 = -21.36 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:27 2006