Locus 4688

Sequence ID 3R_DroMel_CAF1
Location 12,338,371 – 12,338,464
Length 93
Max. P 0.750826
window7701

overview

Window 1

Location 12,338,371 – 12,338,464
Length 93
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 93.56
Mean single sequence MFE -23.74
Consensus MFE -21.82
Energy contribution -21.66
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -1.22
Structure conservation index 0.92
SVM decision value 0.47
SVM RNA-class probability 0.750826
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12338371 93 - 27905053
CGC--------GGCAACUGAGUUCAGUUCUAAGCACCUCGCAAGACUCGGGCAACCGAAACUUUUCGCACAAAACUUUUUUCUAGCUCAAGUAGCAGUAAC
.((--------.((.((((((((.((....(((....((....)).((((....))))................)))....))))))).))).)).))... ( -22.30)
>DroSec_CAF1 7271 101 - 1
CGCGCAGCCACGGCAACUGAGUUCAGUUCCAAGCACCUCGCAAGACUCGGGCAACCGAAAGUUUUCGCACAAAACAUUUUUCUAGCUCAAGUAGCAGUAAC
......((.((((.(((((....))))))).(((...((....)).((((....))))..(((((.....))))).........)))...)).))...... ( -24.90)
>DroSim_CAF1 6400 101 - 1
CGCGCAGCCACGGCAACUGAGUUCAGUUCCAAGCACCUCGCAAGACUCGGGCAACCGAAACUUUUCGCACAAAACUUUUUUCUAGCUCAAGUAGCAGUAAC
......((.((((.(((((....)))))))..((...((....)).((((....))))........))......................)).))...... ( -24.00)
>DroEre_CAF1 6714 101 - 1
CACGCAGCCAAGGCAACUGAGUUCAGUUCCAAGCACCUCGCAAGAAUCGGGCAACCGAAACUUUUCGCACAAAACUUUUUUCUAGCUCAAGUAGCAGUAAC
...((.((...((.(((((....)))))))..((...((....)).((((....))))........))......................)).))...... ( -23.90)
>DroYak_CAF1 2759 101 - 1
CUGGCAGCCAAGGCAACUGAGUUCAGUUCCAAGCACCUCGCAAGAAUCGGGCAACCGAAACUUUUCGCACAAAACUUUUUUCUAGCUCAAGUAGCAGUAAC
...((.((...((.(((((....)))))))..((...((....)).((((....))))........))......................)).))...... ( -23.60)
>consensus
CGCGCAGCCAAGGCAACUGAGUUCAGUUCCAAGCACCUCGCAAGACUCGGGCAACCGAAACUUUUCGCACAAAACUUUUUUCUAGCUCAAGUAGCAGUAAC
...........((.(((((....)))))))..((...((....)).((((....))))........))................(((.....)))...... (-21.82 = -21.66 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:31 2006