Locus 5065

Sequence ID X_DroMel_CAF1
Location 13,256,798 – 13,256,893
Length 95
Max. P 0.642841
window8232

overview

Window 2

Location 13,256,798 – 13,256,893
Length 95
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.81
Mean single sequence MFE -30.56
Consensus MFE -24.90
Energy contribution -24.46
Covariance contribution -0.44
Combinations/Pair 1.18
Mean z-score -1.60
Structure conservation index 0.81
SVM decision value 0.23
SVM RNA-class probability 0.642841
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13256798 95 - 22224390
GU----------GGGUUCGUGGACUCGUCUUGGGGUUGGCAAUUGUCAUUGCCGUUUGGA-------GUAUUGUCAAAGCUGUUAGCCUGCAAUUGAUGAGUCAAUA--------UGUCA
..----------.........((((((((((((((((((((.(((.((.((((.....).-------))).)).)))...))))))))).)))..))))))))....--------..... ( -27.50)
>DroSec_CAF1 2630 94 - 1
GU----------GGGUUUGCGGAGUCGUCUUGGGGUUGGCAGUUGUCAUUGCCGUUU-GA-------GUAUUGUCAAAGCUGUUAGCCUGCAAUUGAUGAGUCAAUA--------UGUCA
..----------.((..((..((.(((((((((((((((((((((.((.(((.....-..-------))).)).))..))))))))))).)))..))))).))..))--------..)). ( -27.80)
>DroSim_CAF1 2652 95 - 1
GU----------GGGUUCGCGGACUCGUCUUGGGGUUGGCAGUUGUCAUUGCCGUUUGGA-------GUAUUGUCAAAGCUGUUAGCCUGCAAUUGAUGAGUCAAUA--------UGUCA
((----------(....))).((((((((((((((((((((((((.((.((((.....).-------))).)).))..))))))))))).)))..))))))))....--------..... ( -32.70)
>DroEre_CAF1 5040 95 - 1
GU----------GGGUUGGCGGACUCGUCUUGGGGCUGACGAUUGUCAUUACUGUUUGGA-------CUAUUGUCAAAGCUGUUGGCCUGCAAUUGAUGAGUCAAUA--------UGUCA
(.----------.(((..((((.((.(((....)))(((((((.(((...........))-------).))))))).))))))..)))..).(((((....))))).--------..... ( -30.70)
>DroYak_CAF1 2898 120 - 1
GGGGAGUUGUUGGGGUUUGCGGACUCGUCUUGGAGCUGGCAAUUGUCAUUACUGUUUGGAAAUUGCUGUAUUGUCAAAGCUGUUGGCCUGCAAUUGAUGAGUCAAUAUGUCAAUAUGUCA
...((..((((((.((.....(((((((((((.(((..(((.(((.((.(((.((.(....)..)).))).)).)))...)))..).)).)))..))))))))...)).))))))..)). ( -34.10)
>consensus
GU__________GGGUUCGCGGACUCGUCUUGGGGUUGGCAAUUGUCAUUGCCGUUUGGA_______GUAUUGUCAAAGCUGUUAGCCUGCAAUUGAUGAGUCAAUA________UGUCA
.....................((((((((((((((((((((.(((.((.(((...............))).)).)))...))))))))).)))..))))))))................. (-24.90 = -24.46 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:12 2006