Locus 6396

Sequence ID 2R_DroMel_CAF1
Location 20,004,148 – 20,004,268
Length 120
Max. P 0.578638
window10206

overview

Window 6

Location 20,004,148 – 20,004,268
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.08
Mean single sequence MFE -35.62
Consensus MFE -19.90
Energy contribution -21.78
Covariance contribution 1.88
Combinations/Pair 1.22
Mean z-score -1.77
Structure conservation index 0.56
SVM decision value 0.09
SVM RNA-class probability 0.578638
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20004148 120 + 20766785
UCCGAAGUGUUGUGGGCAAGGCUUUGACUACCCUCAACAAACCAGACUUGGCUCCCAAUUCCAGGGAAUCAGGUUCCAGCCUGAAAGGUCCUCCUCCGCUUACUAGUCCACCCAUCAGCA
.......(((((((((...((.((((...........)))))).((((.(((((((.......)))).((((((....)))))).(((....)))..)))....))))..)))).))))) ( -33.00)
>DroSec_CAF1 20985 120 + 1
UCCGAAGUCUUGUGGGCAAGGCUUUGAGUACCCUCAACAAACCUGACUUGGCUCCCAAUGCCAGGGAAUCAGGUUCCAGCCUGAAAGGUCCUCCUCCGCCUACUAGUCUACCCAUCAGCA
.....((.((.((((((.((((((((((....)))))..(((((((((((((.......))))))...)))))))..)))))...(((....)))..)))))).)).))........... ( -41.50)
>DroSim_CAF1 21259 120 + 1
UCCGAAGUCUUGUGGGCAAGGCUUUGAGUACCCUCAACAAACCAGACUUGGCUCCCAAUGCCAGGGAAUCAGGUUCCAGCCUGAAAGGUCCUCCUCCGCCUACUAGUCCACCCAUCAGCA
...........((((((.((((.(((((....)))))...(((...((((((.......))))))...((((((....))))))..)))........))))....))))))......... ( -37.30)
>DroEre_CAF1 27006 90 + 1
UUCGAAGUGUUGUGGGCAAGGCUUUGAGUUCCCU---------------GACUCCCAAAGCCAGGGAGUCAGCUA---------------CUCCUCCGUCCGCUAGUCCACCCCUCAGCA
.......(((((.(((...((((..((((...((---------------(((((((.......)))))))))..)---------------)))...........))))...))).))))) ( -32.12)
>DroYak_CAF1 26155 120 + 1
UGCGCAGUGCUGUGGGCAAGGUUUUGAAUUCCCUUCAGAAACCCGACUCGGCUCCCAAUGCCAGUGAUUCGGCUUCACACGUGAAAGGCUCUCCUCCGUCCGCUAGUCCACCCGUCAGCA
.......(((((((((...(((((((((.....))))).)))).((((.(((.......)))((((...(((.((((....))))(((....))))))..))))))))..)))).))))) ( -34.20)
>consensus
UCCGAAGUGUUGUGGGCAAGGCUUUGAGUACCCUCAACAAACCAGACUUGGCUCCCAAUGCCAGGGAAUCAGGUUCCAGCCUGAAAGGUCCUCCUCCGCCUACUAGUCCACCCAUCAGCA
...........((((((.((((...(((.(((............(((((((.((((.......)))).)))))))...........))).)))....))))....))))))......... (-19.90 = -21.78 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:56 2006