Locus 4729

Sequence ID 3L_DroMel_CAF1
Location 13,319,078 – 13,319,196
Length 118
Max. P 0.523440
window7448

overview

Window 8

Location 13,319,078 – 13,319,196
Length 118
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 88.42
Mean single sequence MFE -39.30
Consensus MFE -31.74
Energy contribution -33.30
Covariance contribution 1.56
Combinations/Pair 1.06
Mean z-score -1.83
Structure conservation index 0.81
SVM decision value -0.02
SVM RNA-class probability 0.523440
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13319078 118 + 23771897
UGUGUGCAGACCAAAAGGCGUUGACGACCCCUCUGGACCCGGCCAGUUGGGUAAUUCUUUUUGUUUUUGACAACUUUGAGGCUUCAGAGUUCGUUGGACACUGUGAACGCACACAUGA
(((((((.(.((....)))(((.(((((((..((((......))))..))))..........((.((..(((((((((......))))))).))..)).))))).))))))))))... ( -42.10)
>DroEre_CAF1 4228 118 + 1
UGUGUGCUGGCCAAAAGGCGUUGACGACCCCUCUGGACCCGGCCAGUUGGGUAAUUCCUUUUGUUUUUGACAACUUUGAGGCUUCAGAGUUCGUUGGACACUGUGAACGCACACAUGC
(((((((..(((....)))(((.(((((((..((((......))))..))))..........((.((..(((((((((......))))))).))..)).))))).))))))))))... ( -45.20)
>DroYak_CAF1 4089 106 + 1
--------GGCCAAAAGGCGUUGACGACCCCUUUGGACCCGGCCAGUUGGGUAAUUCUUUUUGUUUUUGACAACUUUGAGGCUUCAGAGUUCGUUGGACGUUGG----ACACACAUGA
--------.(((....)))((..(((((((..((((......))))..)))).............((..(((((((((......))))))).))..)))))..)----.)........ ( -30.60)
>consensus
UGUGUGC_GGCCAAAAGGCGUUGACGACCCCUCUGGACCCGGCCAGUUGGGUAAUUCUUUUUGUUUUUGACAACUUUGAGGCUUCAGAGUUCGUUGGACACUGUGAACGCACACAUGA
.((((((....(((((((.(((....((((..((((......))))..))))))).)))))))..((..(((((((((......))))))).))..))..........)))))).... (-31.74 = -33.30 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:46 2006