Locus 4215

Sequence ID 3R_DroMel_CAF1
Location 11,359,404 – 11,359,524
Length 120
Max. P 0.995800
window6806

overview

Window 6

Location 11,359,404 – 11,359,524
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.17
Mean single sequence MFE -40.03
Consensus MFE -35.04
Energy contribution -34.36
Covariance contribution -0.68
Combinations/Pair 1.18
Mean z-score -2.14
Structure conservation index 0.88
SVM decision value 2.62
SVM RNA-class probability 0.995800
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11359404 120 + 27905053
GGUAUGACCAAUGGGUGAUUCGUUGGCCAGAUAUCCAGCAUCCUCGUAGAAUCGACUAACGAUACCGGAGAUCUUUCCGGAUUUCUGAACGAAAAAGUCGUAGUCGCAAUGGAAGGCCCA
((.....))..(((((..(((((((((..(....)..)).............((((((.((((.((((((....)))))).((((.....))))..)))))))))))))))))..))))) ( -36.50)
>DroSec_CAF1 106952 120 + 1
GGUGUGACCUAUGGGUGAUUCGUUGGACAGAUAUCCAGCAUCCUCGUAGAAUCGACUUACGAUACCGGAAAUCUUUCCGGAUUUCUGAACGAAGAAGUCGUAAUCGCAAUGGAAGGCCCA
(((.(..((((((((.(((..((((((......))))))))))))))))...(((.(((((((.((((((....))))))..((((......))))))))))))))....)..).))).. ( -40.20)
>DroSim_CAF1 97734 120 + 1
GGUGUGACCAAUGGGUGAUUCGUUGGACAGAUAUCCAGCAUCCUCGUAGAAUCGACUUACGAUACCAGAAAUCUUUCCGGAUUUCUGAACGAAGAAGUCGUAGUCGCAAUGGAAGGCCCA
((.....))..(((((.....((((((......)))))).(((.....((..((((((.......(((((((((....))))))))).......))))))...)).....)))..))))) ( -38.74)
>DroEre_CAF1 94382 120 + 1
GGCAUGGCCUAUGGGCGAUUCGUUGGAUAGAUAUCCAGCAUCCUCGUAGAACCGACUUACGAUGCCGGAGAUUUUACCGGACUUCUGAACGAAGAAAUCGUAGUCGCAAUGGAAUGCCCA
((((((..(((((((.(((..(((((((....)))))))))))))))))..)(((((.(((((.((((........)))).((((.....))))..)))))))))).......))))).. ( -44.50)
>DroYak_CAF1 97057 120 + 1
GGUAUGGCCUAUGGGCGAUUCGUUGGUUAGAUAUCCAGCAUCCUCGUAGAAUCGACUUGUGAUUCCGGAGAUUUUUCCGGAUUUCUGAACGAAGAAGUCGUAGUCGCAAUGGAAUGCCCA
(((((...(((((((.(((..(((((........)))))))))))))))..((.(.((((((((.(((((....)))))(((((((......)))))))..))))))))).))))))).. ( -40.20)
>consensus
GGUAUGACCUAUGGGUGAUUCGUUGGACAGAUAUCCAGCAUCCUCGUAGAAUCGACUUACGAUACCGGAGAUCUUUCCGGAUUUCUGAACGAAGAAGUCGUAGUCGCAAUGGAAGGCCCA
(((...)))..(((((.....(((((........))))).(((.....((..((((((.......(((((((((....))))))))).......))))))...)).....)))..))))) (-35.04 = -34.36 +  -0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:59 2006