Locus 1736

Sequence ID 3L_DroMel_CAF1
Location 5,031,769 – 5,031,869
Length 100
Max. P 0.650019
window2675

overview

Window 5

Location 5,031,769 – 5,031,869
Length 100
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 88.10
Mean single sequence MFE -21.10
Consensus MFE -15.78
Energy contribution -16.42
Covariance contribution 0.64
Combinations/Pair 1.05
Mean z-score -1.70
Structure conservation index 0.75
SVM decision value 0.24
SVM RNA-class probability 0.650019
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5031769 100 + 23771897
GGC---CAUUGCCACUCGAAAUCAGAGGUUUCGAUUUCCGGAACACACCAUUCAAUUGCAUUCAUGUCGUUGCAAUUUGUUCAAUCGCUCUUUCUCG-----UUU-UUU
(((---....)))...(((....((((((((((.....)))))).........(((((((..........)))))))..........))))...)))-----...-... ( -19.40)
>DroSec_CAF1 238420 101 + 1
GGC---CAUUGCCAGUCGAAACCAGUGGUUUCGAUUUCCGGAACACACCAUUCAAUUGCAUUCAUGUCGUUGCAAUUUGUUCAAUCGCUCUUUCUCU-----UUUUUUU
(((---....)))((((((((((...))))))))))....(((((........(((((((..........))))))))))))...............-----....... ( -23.00)
>DroSim_CAF1 259274 101 + 1
GGC---CAUUGCCAGUCGAAACCAGUGGUUUCGAUUUCCGGAACACACCAUUCAAUUGCAUUCAUGUCGUUGCAAUUUGUUCAAUCGCUCUUUCUCU-----UUUUUUU
(((---....)))((((((((((...))))))))))....(((((........(((((((..........))))))))))))...............-----....... ( -23.00)
>DroEre_CAF1 241819 99 + 1
GGC---AAUUGCCACUCGAAACCAGAGGUUUCGAUUUCCGGAACACACCAUACAAUUGCAUUCAUGUCGCAGCAAUUUGUUCAAUCUCUCUUUCUC-------UUUUUA
(((---....)))..((((((((...))))))))......(((((........((((((............)))))))))))..............-------...... ( -20.40)
>DroYak_CAF1 247556 108 + 1
GACGACCAUUGCCAC-CGAAACGAGAGGUUUCAAUUUCCGGAACACACCAUACAAUUGCAUACAUGUCGUUGCAAUUUGUUCAAUCUCUUUCUCUCGCUCUCUUUUCUU
...............-.((((.((((((((((.......))))).......(((((((((.((.....))))))).)))).................))))).)))).. ( -19.70)
>consensus
GGC___CAUUGCCACUCGAAACCAGAGGUUUCGAUUUCCGGAACACACCAUUCAAUUGCAUUCAUGUCGUUGCAAUUUGUUCAAUCGCUCUUUCUCG_____UUUUUUU
(((.......)))..(((((((.....)))))))......(((((........(((((((..........))))))))))))........................... (-15.78 = -16.42 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:51 2006