Locus 1924

Sequence ID X_DroMel_CAF1
Location 5,300,742 – 5,300,842
Length 100
Max. P 0.651576
window3127

overview

Window 7

Location 5,300,742 – 5,300,842
Length 100
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.47
Mean single sequence MFE -27.03
Consensus MFE -16.36
Energy contribution -17.16
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.61
SVM decision value 0.25
SVM RNA-class probability 0.651576
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5300742 100 - 22224390
CGA---CGACCACGCUGCGUAUGAGUGAUUUUUUUU----UGGGGGGGGGG-------------UUUAUAAAAAAGUGAAAGAAAGUGAAAGAAAGUCGCUGGCAGACGGUCAAAUACAA
...---.((((...((((.....(((((((((((((----(..........-------------(((((......))))).......)))))))))))))).))))..))))........ ( -23.63)
>DroSec_CAF1 37551 92 - 1
CGA---CGACCACGCUGCGUAUGAGUGAUAUUUU------UGGGUGGGG-------------------CAAGAAAGUGAACGAAAGUGAAAGAAGGUCGCUAGCAGACGGUCAAAUACAA
...---.((((...((((.....(((((((((((------(..(.....-------------------)..))))))..((....))........)))))).))))..))))........ ( -24.00)
>DroSim_CAF1 28376 92 - 1
CGA---CGACCACGCUGCGUAUGAGUGAUAUUUU------UGGGUGGGG-------------------CAAGAAAGUGAACGAAAGUGAAAGAAAGUCGCUAGCAGACGGUCAAAUACAA
...---.((((...((((.....(((((((((((------(..(.....-------------------)..))))))..((....))........)))))).))))..))))........ ( -23.90)
>DroEre_CAF1 38979 113 - 1
CCA---CGACCACGCUGCGUAUGAGUGAUAUUUUUU----GGGGCGGGAAACUCGUCUCGUUGCUCCGCAAUAAAGUGAAAGAAAGUGAAAGAAAGUCGCUAGCAGACGGUCAAAUACAA
...---.((((...((((.....((((((.((((((----(((((((....).))))))(((((...)))))................)))))).)))))).))))..))))........ ( -36.10)
>DroYak_CAF1 39358 111 - 1
CGACGACGACCACGCUGCGUAUGAGUGAUAUUUUUUUUGGGGGGCGGGUAACGAAAG---------UGAAAGAAAGUCGGAGAAAGUGAAAGAAAGUCGCUAGCAGACGGUCAAAUACAA
(..((((.(((.((((.(.((.(((........))).)).).))))))).((....)---------)........))))..)...(((...((..(((.......)))..))...))).. ( -27.50)
>consensus
CGA___CGACCACGCUGCGUAUGAGUGAUAUUUUUU____UGGGCGGGG___________________CAAGAAAGUGAAAGAAAGUGAAAGAAAGUCGCUAGCAGACGGUCAAAUACAA
.......((((...((((.....((((((.((((((....................................................)))))).)))))).))))..))))........ (-16.36 = -17.16 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:58 2006