Locus 4388

Sequence ID X_DroMel_CAF1
Location 11,552,842 – 11,552,962
Length 120
Max. P 0.554831
window7207

overview

Window 7

Location 11,552,842 – 11,552,962
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.89
Mean single sequence MFE -45.73
Consensus MFE -44.75
Energy contribution -44.53
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.44
Structure conservation index 0.98
SVM decision value 0.04
SVM RNA-class probability 0.554831
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11552842 120 + 22224390
GCCGGCGACGUCCGUGCUCUCUGCCGCCGCUCUGCCAUCGCCUCUGCCGCUGCGUUUAUGCGCAGUGCGUCAUUACACGAAUACCUGUUUAAAGCGGAGGCAUAAACGCGGCUUUGUCGA
((((((((((..((.((.....)))).)).)).)))...((((((((((((((((....))))))))(((......)))..............))))))))........)))........ ( -45.00)
>DroSec_CAF1 19055 120 + 1
GCCGGCGACGUCCGUGCUCUCUGCCGCCGCUCUGCCAUCGUCUCUGCCGCUGCGUUUAUGCGCAGUGCGUCAUUACACGAAUACCUGUUCAAAGCGGAGGCAUAAACGCGGCUUUGUCGA
..((((((.(.(((((.....((((.(((((.((.((((((...(((((((((((....)))))))).).))....)))).....))..)).))))).))))....)))))).)))))). ( -46.10)
>DroSim_CAF1 19688 120 + 1
GCCGGCGACGUCCGUGCUCUCUGCCGCCGCUCUGCCAUCGUCUCUGCCGCUGCGUUUAUGCGCAGUGCGUCAUUACACGAAUACCUGUUCAAAGCGGAGGCAUAAACGCGGCUUUGUCGA
..((((((.(.(((((.....((((.(((((.((.((((((...(((((((((((....)))))))).).))....)))).....))..)).))))).))))....)))))).)))))). ( -46.10)
>consensus
GCCGGCGACGUCCGUGCUCUCUGCCGCCGCUCUGCCAUCGUCUCUGCCGCUGCGUUUAUGCGCAGUGCGUCAUUACACGAAUACCUGUUCAAAGCGGAGGCAUAAACGCGGCUUUGUCGA
..((((((.(.(((((.....((((.(((((..............((((((((((....)))))))).))........((((....))))..))))).))))....)))))).)))))). (-44.75 = -44.53 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:45 2006