Locus 4068

Sequence ID 3R_DroMel_CAF1
Location 11,077,161 – 11,077,257
Length 96
Max. P 0.516570
window6518

overview

Window 8

Location 11,077,161 – 11,077,257
Length 96
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 86.05
Mean single sequence MFE -20.88
Consensus MFE -13.50
Energy contribution -13.62
Covariance contribution 0.12
Combinations/Pair 1.21
Mean z-score -1.90
Structure conservation index 0.65
SVM decision value -0.03
SVM RNA-class probability 0.516570
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11077161 96 - 27905053
UACUUUACUAAGGACCUUGUAGGGCAUACAUACAUAUGUAUGUAUGUAUGUGCUUGAAUAGAAUCCCUACGAAAGCAUAUUUUUGCACCUAUAAUG
................(((((((((((((((((....))))))))))((((((((...(((.....)))...)))))))).......))))))).. ( -28.90)
>DroSec_CAF1 7054 88 - 1
UACUUCUCUAAGGACCUUGUAGGACAUA----CAUAU----GUAUGUAUGUGUUUGAAUAGGAUCCCUACGAACGUAUAUAUUUGCACCUAUAAUG
................((((((((((((----(((..----..))))))))(((((..((((...)))))))))(((......))).))))))).. ( -20.80)
>DroSim_CAF1 7263 92 - 1
UACUUCUCUAAGGACCUUGUAGGACAUACAUACAUAU----GUAUGUAUGUGUUUGAAUAGAAUCCCUACGAACGUAUAUAUUUGCACCUAUAAUG
..........(((...(((((((((((((((((....----))))))))))((((.....)))).)))))))..(((......))).)))...... ( -23.90)
>DroEre_CAF1 8475 88 - 1
UACUUGACUAAGGACCUUGUAGGGCAUACAUACAA--------AUGCAUGUGUUUGAAUAGAAUCCGUACGAACGUAUAUAUUUGCACCUAUAAUG
..(((.....)))...(((((((((((((((.(..--------..).)))))).......((((..((((....))))..)))))).))))))).. ( -15.70)
>DroYak_CAF1 7014 88 - 1
UACUUGACUAAGGACCUUGUAGAGCAUAUGUGCAU--------AUGUAUGUGCUUGAAUAGAAUCCAAACGAACGUAUAUAUUUGCACCUAUAAUG
...........(((..((((.(((((((((.....--------...)))))))))..))))..)))........(((......))).......... ( -15.10)
>consensus
UACUUCACUAAGGACCUUGUAGGGCAUACAUACAUAU____GUAUGUAUGUGUUUGAAUAGAAUCCCUACGAACGUAUAUAUUUGCACCUAUAAUG
...........(((..((((.(((((((..(((((((....))))))))))))))..))))..)))........(((......))).......... (-13.50 = -13.62 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:20 2006