Locus 7972

Sequence ID X_DroMel_CAF1
Location 19,865,066 – 19,865,186
Length 120
Max. P 0.671150
window13079

overview

Window 9

Location 19,865,066 – 19,865,186
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.33
Mean single sequence MFE -45.02
Consensus MFE -36.44
Energy contribution -38.25
Covariance contribution 1.81
Combinations/Pair 1.03
Mean z-score -1.72
Structure conservation index 0.81
SVM decision value 0.29
SVM RNA-class probability 0.671150
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19865066 120 + 22224390
GGGAGGAGUGGUUGAGCGCUAGCGCUUCGGGCGAGGUUCCUGUUACUUUUGCCCGGCAAACGCAAUUACUCACUGCCAGGUCGCGGGAGUGGGUCUAAUCACUUGACCCCACUCAACCUU
((.(((((((((((((((....))))(((((((((((.......)).)))))))))......))))))))).)).))((((.....(((((((((.........)).))))))).)))). ( -50.10)
>DroSec_CAF1 22857 119 + 1
GGGAGGAGUGGUUGA-CACUAGCGCUUCGGGCGAGGUUCCUGUUACUUUUGCCCGGCAAACGCAAUUACUCACUGCCAGGUCGCGGGAGUGGGUCUAAUCACUUGACCCCACUCAACCUU
((.(((((((((((.-.....((....((((((((((.......)).)))))))))).....))))))))).)).))((((.....(((((((((.........)).))))))).)))). ( -44.80)
>DroSim_CAF1 13942 119 + 1
GGGAGGAGUGGUUGA-CACCAGCGCUUCGGGCGAGGUUCCUGUUACUUUUGCCCGGCAAACGCAAUUACUCACUGCCAGGUCGCGGGAGUGGGUCUAAUCACUUGACCCCACUCAACCUU
(((..((((((((((-(.((.(((..(((((((((((.......)).)))))))))....)))....((((.((((......))))))))))))).))))))))..)))........... ( -45.80)
>DroEre_CAF1 589 109 + 1
GGGAGGAGUGGCUGA-G----GUUCCUC------GGUUCCUGUUACUUUUGCCCGGCAAACGCAAUUACUCACUGCCAGGUCGCGGCAGUGGGUCUAAUCACUUGACCCCACUCAACCUU
(((..((((((((((-(----....)))------)))...........(((((((((....(((.........)))...)))).))))).(((((.........))))))))))..))). ( -39.40)
>consensus
GGGAGGAGUGGUUGA_CACUAGCGCUUCGGGCGAGGUUCCUGUUACUUUUGCCCGGCAAACGCAAUUACUCACUGCCAGGUCGCGGGAGUGGGUCUAAUCACUUGACCCCACUCAACCUU
((.(((((((((((.......((....((((((((((.......)).)))))))))).....))))))))).)).))((((.....(((((((((.........)).))))))).)))). (-36.44 = -38.25 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:05 2006