Locus 3839

Sequence ID X_DroMel_CAF1
Location 10,208,146 – 10,208,265
Length 119
Max. P 0.892532
window6315

overview

Window 5

Location 10,208,146 – 10,208,265
Length 119
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 80.24
Mean single sequence MFE -26.87
Consensus MFE -19.59
Energy contribution -19.26
Covariance contribution -0.33
Combinations/Pair 1.12
Mean z-score -1.97
Structure conservation index 0.73
SVM decision value 0.97
SVM RNA-class probability 0.892532
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10208146 119 - 22224390
AUAAAAUUCAUAAUGCUAACUAUGCACAUGCAAUUAACAGCGUGCAUUAUGACUUGAUCCUGUGCAUAUGUAUGUAUGCACUUUCUCUCAGUGUAGUCAUGUUUAGUUACGUGGUAUAC
.......(((((((((.......)).(((((........))))).)))))))..(((....((((((((....))))))))......)))(((((.((((((......))))))))))) ( -29.20)
>DroSec_CAF1 4621 101 - 1
------------AUGCAAAC---AUAAAUGCAAUUAACAUAGUGCAUUAUGGCUUGGUUUUGUGCAUA---AUGUGUGCACUUUCUCUCAGUGUAGUCAUGUUUAGUUACGUGGCUUAC
------------.((((.((---((..(((((...(((.....((......))...)))...))))).---)))).))))..........(((.((((((((......))))))))))) ( -25.30)
>DroSim_CAF1 4957 101 - 1
------------UUGCAAAC---AUAAAUGCAAUUAACAUGGUGCAUUAUGGCUUCGUUCUGUGCAUA---AUGUGUGCACUUUCUCUCAGUGUAGUCAUGUUUAGUUACGUGGCUUAC
------------(((((...---.....)))))...((((.((((((.(((....)))...)))))).---)))).((((((.......))))))(((((((......))))))).... ( -26.10)
>consensus
____________AUGCAAAC___AUAAAUGCAAUUAACAUAGUGCAUUAUGGCUUGGUUCUGUGCAUA___AUGUGUGCACUUUCUCUCAGUGUAGUCAUGUUUAGUUACGUGGCUUAC
.............(((..........((((((..........))))))...(((.......(((((((......)))))))........))))))(((((((......))))))).... (-19.59 = -19.26 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:58 2006