Locus 4875

Sequence ID 2R_DroMel_CAF1
Location 15,942,478 – 15,942,568
Length 90
Max. P 0.596323
window7822

overview

Window 2

Location 15,942,478 – 15,942,568
Length 90
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 77.91
Mean single sequence MFE -18.88
Consensus MFE -13.66
Energy contribution -12.73
Covariance contribution -0.94
Combinations/Pair 1.25
Mean z-score -1.52
Structure conservation index 0.72
SVM decision value 0.13
SVM RNA-class probability 0.596323
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15942478 90 - 20766785
UAAAUCUGUCUAA-AUUUAUUUACAAUG------CAAACGGC-----------UGGCC-AGGCCUGCAAAUGGAUUUCCAUU-CCGAUAAAGUGAAAAUAUUUGUAAAUC
.............-....((((((((((------((...(((-----------(....-.))))))))(((((....)))))-..................)))))))). ( -17.20)
>DroSec_CAF1 69831 83 - 1
UAAAUCUGUCUAA-AUUUAUUUACAAUG-------------C-----------UGGCC-CGGCCUGCAAAUGGAUUUCCAUU-CCGAUAAAGUGAAAAUAUUUGUAAAUC
.............-....((((((((((-------------(-----------.(((.-..))).)))(((((....)))))-..................)))))))). ( -15.40)
>DroSim_CAF1 69153 83 - 1
UAAAUCUGUCUAA-AUUUAUUUACAAUG-------------C-----------CGGCC-CGGCCUGCAAAUGGAUUUCCAUU-CCGAUAAAGUGAAAAUAUUUGUAAAUC
.............-....((((((((((-------------(-----------.(((.-..))).)))(((((....)))))-..................)))))))). ( -15.40)
>DroAna_CAF1 64488 110 - 1
UAAAUCGGCCUAAAAUUUAUUUACAACAAGGCACCACACAGCCCAACCAGCAAUGUUCAGGGGCUGCAAAUGGAUUUCCAUUUUCGAUAAAGUGAAAAUAUUUGUGGAUA
.......((((.................)))).(((((((((((...((....)).....)))))).((((((....))))))...................)))))... ( -27.53)
>consensus
UAAAUCUGUCUAA_AUUUAUUUACAAUG_____________C___________UGGCC_CGGCCUGCAAAUGGAUUUCCAUU_CCGAUAAAGUGAAAAUAUUUGUAAAUC
..................((((((((............................(((....)))....(((((....)))))...................)))))))). (-13.66 = -12.73 +  -0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:16 2006