Locus 16

Sequence ID X_DroMel_CAF1
Location 39,346 – 39,457
Length 111
Max. P 0.677337
window18

overview

Window 8

Location 39,346 – 39,457
Length 111
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 88.59
Mean single sequence MFE -29.45
Consensus MFE -22.66
Energy contribution -22.10
Covariance contribution -0.56
Combinations/Pair 1.24
Mean z-score -1.65
Structure conservation index 0.77
SVM decision value 0.30
SVM RNA-class probability 0.677337
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 39346 111 + 22224390
GGAGUCUUUACUGAUUCUGUUUUACUUGAUUGUGCAUAUAGCGGCUCAGUCUUCUUUAGGCCGUCUUCCUGAACCCGGUGAUUAGACUUAAGUUGUAUGUAAUUGUUCAGA
((((((......))))))......((.(((..(((((((((((((..((......))..)))(((((((((....))).))..))))....))))))))))...))).)). ( -30.70)
>DroSec_CAF1 26333 111 + 1
GGAAUCUUCACUGAUUCUGUUUUACUUGAUUGUGCAUAUAGCGGCACAGUCUUGUUUAGGCCCUCUUCCUGAACCCGGUAAUUAAACCUAAGUUGUAUGUAAUUGUUCGGA
((((((......))))))((((.((..((((((((........))))))))..))..)))).......((((((..(((......)))..(((((....))))))))))). ( -27.90)
>DroSim_CAF1 26573 111 + 1
GGAAUCUUCACUGAUUCUGUUUUACUUGAUUGUGCAUAUAGCGGCACAGUCUUGUUUAGGCCCUCUUCCUGAACCCGGUAAUUAGACCUAAGUUGUAUGUAAUUGUUCGGA
((((((......))))))((((.((..((((((((........))))))))..))..)))).......((((((..(((......)))..(((((....))))))))))). ( -28.00)
>DroEre_CAF1 8820 111 + 1
GGAGUCUUCCCCGAUUCUGUUUUGUUUGGUUGUGCCUAUAGCGGGACAAUCUUGCUUAGGCCGUUUUCCUGAUCCGGGUAAUUAAACUUAUGUUGUAUUUAAUUGUUCGGC
((((((......)))))).....(((.((.((.(((((.((((((.....)))))))))))))....)).)))(((..(((((((((.......))..)))))))..))). ( -31.20)
>consensus
GGAAUCUUCACUGAUUCUGUUUUACUUGAUUGUGCAUAUAGCGGCACAGUCUUGUUUAGGCCCUCUUCCUGAACCCGGUAAUUAAACCUAAGUUGUAUGUAAUUGUUCGGA
((((((......))))))((((.((..((((((((........))))))))..))..)))).......((((((..........(((....)))..........)))))). (-22.66 = -22.10 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:17 2006