Locus 4450

Sequence ID 3R_DroMel_CAF1
Location 11,778,527 – 11,778,637
Length 110
Max. P 0.708842
window7276

overview

Window 6

Location 11,778,527 – 11,778,637
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 90.48
Mean single sequence MFE -15.19
Consensus MFE -10.04
Energy contribution -11.00
Covariance contribution 0.96
Combinations/Pair 1.07
Mean z-score -3.26
Structure conservation index 0.66
SVM decision value 0.37
SVM RNA-class probability 0.708842
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11778527 110 + 27905053
AUAACAUAAAAAUCAAAAACUGAAAUUACCAUAACUCAUUUCAUUCAGCUCAUGAUCAAGUACAAUUUCCAUUUGAUCAAACCAUUUGAUCAAACCACUGAAUAGAUUUC
.........(((((.......(((((...........)))))((((((....(((((((((......((.....)).......))))))))).....)))))).))))). ( -15.12)
>DroSec_CAF1 111420 110 + 1
AUAACAUAAAAAUCAAAACCUGAAAUUACCAUAACUCAUUUCAUUCAGCUCAUGAUCAAGUACAAUUUCCAUUUGAUCAAACCAUUUGAUCAAACAACUGAAUAGAUUUC
.........(((((.......(((((...........)))))((((((....(((((((((......((.....)).......))))))))).....)))))).))))). ( -15.12)
>DroSim_CAF1 113228 110 + 1
AUAACAUAAAAAUCAAAACCUGAAAUUACCAUAACUCAUUUCAUUCAGCUCAUGAUCAAGUACAAUUUCCAUUUGAUCAAACCAUUUGAUCAAACAACUGAAUAGAUUUC
.........(((((.......(((((...........)))))((((((....(((((((((......((.....)).......))))))))).....)))))).))))). ( -15.12)
>DroEre_CAF1 112237 102 + 1
AUAACAAAAAAAUCAAAAACUGAAAUUACCAUAACUCAUUUCAUUCAGCUCAUGAUCAAGUACAAUUUCCAUUUGAC--------UAGGUCAAACCACUGAAUCGUUUUC
...............(((((.(((((...........)))))((((((....(((((.(((.(((.......)))))--------).))))).....)))))).))))). ( -14.50)
>DroYak_CAF1 115845 102 + 1
AUAACAUACAAGUCAAAAACUGAAAUUACCAUAACUCAUUUCAUUCAGCUCAUGAUCAAGUACAAUUUUCAUUUGAC--------UAGGUCAAACCACUGAAUAGUUUUC
...............(((((((((((...........)))))((((((....(((((.(((.(((.......)))))--------).))))).....)))))))))))). ( -16.10)
>consensus
AUAACAUAAAAAUCAAAAACUGAAAUUACCAUAACUCAUUUCAUUCAGCUCAUGAUCAAGUACAAUUUCCAUUUGAUCAAACCAUUUGAUCAAACCACUGAAUAGAUUUC
.........(((((.......(((((...........)))))((((((....((........)).......(((((((((.....)))))))))...)))))).))))). (-10.04 = -11.00 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:36 2006