Locus 3125

Sequence ID 3L_DroMel_CAF1
Location 9,100,674 – 9,100,764
Length 90
Max. P 0.781748
window4874

overview

Window 4

Location 9,100,674 – 9,100,764
Length 90
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 66.89
Mean single sequence MFE -26.02
Consensus MFE -9.51
Energy contribution -9.70
Covariance contribution 0.19
Combinations/Pair 1.35
Mean z-score -2.61
Structure conservation index 0.37
SVM decision value 0.56
SVM RNA-class probability 0.781748
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9100674 90 + 23771897
AUUGCGAGAAGCGUCUGUUUGUGAAGUUGGAAAAUUUGAAUUUCAUCAACGGCAAA-------GCAG----------AGCGAAAGCAAAGAC---AGGCAGCGGACGAAA
....((....((((((((((((((((((.((....)).))))))))..........-------....----------.((....))..))))---)))).))...))... ( -23.10)
>DroWil_CAF1 24178 105 + 1
AUUG-----GAGUCCAAUUUGAGAAGUUGGAAAAUUUCAAUUUCAUCACUGGCUGUGGCUGUGGCAGUGUCAGUGGCAGUGGCAGCAAGCACCAAAGACAGCGAGAAAAA
.(((-----(.((......((((((((((((....))))))))).)))...(((((.(((((.((.......)).))))).)))))..)).))))............... ( -33.00)
>DroYak_CAF1 21926 90 + 1
AUUGCGAGAAGCGUCUGUUUGUGAAGUUGGAAAAUUUGAAUUUCAUCAACGGCGCU-------GCAA----------AGCGAAAGCAAAGAC---AGGCAGCGGACGAAA
...((.....))(((((((.((((((((.((....)).)))))))).)))).((((-------((..----------.((....))......---..))))))))).... ( -28.10)
>DroAna_CAF1 16466 78 + 1
AUUG-----AGCGUCUGUUUGUGAAGUUGGAAAAUCUGAAUUUCAUCAGCAGCCAG-------CGAG----------A---AAAGCAAAGAC---A----GCGAGCGAAA
.(((-----..((.((((((((...(((((.....((((......))))...))))-------)...----------.---...)))..)))---)----)))..))).. ( -19.90)
>consensus
AUUG_____AGCGUCUGUUUGUGAAGUUGGAAAAUUUGAAUUUCAUCAACGGCAAU_______GCAG__________AGCGAAAGCAAAGAC___AGGCAGCGAACGAAA
...........((((((((.((((((((.((....)).)))))))).)))))..........................((....))..................)))... ( -9.51 =  -9.70 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:10 2006