Locus 3

Sequence ID 2R_DroMel_CAF1
Location 724,352 – 724,452
Length 100
Max. P 0.648094
window5

overview

Window 5

Location 724,352 – 724,452
Length 100
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 81.94
Mean single sequence MFE -30.50
Consensus MFE -22.55
Energy contribution -24.00
Covariance contribution 1.45
Combinations/Pair 1.04
Mean z-score -1.69
Structure conservation index 0.74
SVM decision value 0.24
SVM RNA-class probability 0.648094
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 724352 100 + 20766785
AAUG--------------------UUAGACAGACUCCACUAUUGGUUUUGUAAACCAUGCCAAGCCAGAUUGCCGCUGGGUAACAAGGCCAGCCUGGAGACGAAAAUCGCUCCAUCCACA
..((--------------------(((..(((.(..((...(((((((.(((.....))).)))))))..))..))))..)))))(((....)))((((.((.....))))))....... ( -26.50)
>DroSec_CAF1 47572 120 + 1
AAUGCUCACCUUUAACCCACAAUUUUAGAUAGACUCCAUCAUUGUUUUGGUAAGCAAUGCCAAGUCAGAUUGUCGCUGGGUAACAAGGCCAGCCUGGAGACGACAAUCGCUGCAUUCACA
(((((..........................((((....((((((((....))))))))...)))).((((((((((((.(.....).)))))..(....))))))))...))))).... ( -34.10)
>DroSim_CAF1 35190 120 + 1
AAUGAUCACCUUUAACCCACAAUUUUAGACAGACUCCAUCAUUGUUUUGGUAAGCAAUGCCAAGUCAGAUUGUCGCUGGGUAACAAGGCCAGCCUGGAGACGACAAUCGCUGCAUUCACA
..(((..........................((((....((((((((....))))))))...)))).((((((((((((.(.....).)))))..(....)))))))).......))).. ( -30.90)
>consensus
AAUG_UCACCUUUAACCCACAAUUUUAGACAGACUCCAUCAUUGUUUUGGUAAGCAAUGCCAAGUCAGAUUGUCGCUGGGUAACAAGGCCAGCCUGGAGACGACAAUCGCUGCAUUCACA
...............................((((....((((((((....))))))))...)))).((((((((((((.(.....).)))))..(....))))))))............ (-22.55 = -24.00 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:23:04 2006