Locus 7906

Sequence ID X_DroMel_CAF1
Location 19,694,006 – 19,694,113
Length 107
Max. P 0.988012
window12971

overview

Window 1

Location 19,694,006 – 19,694,113
Length 107
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 89.41
Mean single sequence MFE -41.74
Consensus MFE -34.39
Energy contribution -34.95
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -3.18
Structure conservation index 0.82
SVM decision value 2.10
SVM RNA-class probability 0.988012
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19694006 107 + 22224390
AGACUGCUCUUGCUCCUGUCCAGCCCCACUCCUCGUCCGCAGUCCAGCGCCGCACACCAGCUGGACAGCCCGAUGACGCACCCACUCCGCGUCGUCGUGCAGCAGCA
.....(((.((((..(((((((((.........((..(((......))).)).......)))))))))..(((((((((.........))))))))).)))).))). ( -40.99)
>DroSec_CAF1 505 107 + 1
AGCCUGCUCUUGCUCCUGUUCAGCCGCACUCCUCCUCCGCAGUCCAGCGCAGCACACCAGCUGGACAGCCCGAUGACGCACCCACUCCGCGUCGUCGUGCAGCAGGA
..((((((...(((.......))).((((.........((.(((((((...........))))))).))..((((((((.........)))))))))))))))))). ( -43.90)
>DroSim_CAF1 273 107 + 1
AGCCUGCUCUUGCUCCUGUUCAGCCCCGCUCCUCCUCCGCAGUCCAGCGCCGCACACCAGCUGGACAGCCCGAUGACGCACCCACUCCGCGUCGUCGUGCAGCAGGA
..((((((..(((........(((...)))........)))(((((((...........))))))).((.(((((((((.........))))))))).)))))))). ( -42.19)
>DroEre_CAF1 796 95 + 1
AC------CUUGCUCCUGUUCAGCUGCACUCCU------CAGCCCUGCGCCGCACACCAGCUGGACAGCCCGAUGACGCACCCACUCCGCGUCGUCGUGCAGCAGGA
..------((((((..((((((((((.......------..((...)).........))))))))))((.(((((((((.........))))))))).)))))))). ( -39.87)
>consensus
AGCCUGCUCUUGCUCCUGUUCAGCCCCACUCCUCCUCCGCAGUCCAGCGCCGCACACCAGCUGGACAGCCCGAUGACGCACCCACUCCGCGUCGUCGUGCAGCAGGA
........((((((..((((((((.............(((......)))..........))))))))((.(((((((((.........))))))))).)))))))). (-34.39 = -34.95 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:29 2006