Locus 7569

Sequence ID 3L_DroMel_CAF1
Location 20,339,885 – 20,339,998
Length 113
Max. P 0.874958
window12293

overview

Window 3

Location 20,339,885 – 20,339,998
Length 113
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 92.89
Mean single sequence MFE -28.42
Consensus MFE -22.42
Energy contribution -24.26
Covariance contribution 1.84
Combinations/Pair 1.03
Mean z-score -1.93
Structure conservation index 0.79
SVM decision value 0.89
SVM RNA-class probability 0.874958
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20339885 113 + 23771897
AUUUCACAGUUUUUCCACACAAAAGCAAUGCCGACCGACCCACAUUUAUGAAUGGAAAGUAUCCUUAAUCUUAUCAUCAUGGGGUGGGUUGGACUUCGACCGAAAUUUUGUCA
(((((...((((((......)))))).....((((((((((((.(((((((.(((.(((..........))).)))))))))))))))))))...)))...)))))....... ( -29.40)
>DroSec_CAF1 9310 113 + 1
AUUUCACAGUUUUUCCACACAAAAGCAAUGCCGACCGACCCACAUUUAUGAAUGGAAAGUAUCCUUAAUCUUAUCAUCAUGGGGUGGGUUGGACUUCGACCGAAAUUUUGUCA
(((((...((((((......)))))).....((((((((((((.(((((((.(((.(((..........))).)))))))))))))))))))...)))...)))))....... ( -29.40)
>DroSim_CAF1 9320 113 + 1
AUUUCACAGUUUUUCCGCACAAAAGCAAUGCCGACCGACCCACAUUUAUGAAUGGAAAGUAUCCUUAAUCUUAUCAUCAUGGGGUGGGUUGGACUUCGACCGAAACUUUGUCA
.....((((..((((.((......)).....((((((((((((.(((((((.(((.(((..........))).)))))))))))))))))))...)))...))))..)))).. ( -30.30)
>DroEre_CAF1 9279 108 + 1
AUUUCACAGUU-UUCCACACAAAAGCGAUGCCG----ACCCACAUUUAUGAAUGGAAAGUAUCCUUAAUCUUAUCAUCAUGGGGUGGGUUGCGCUUCGACCGAAAUUUUGUCA
...........-......((((((.(((.((((----((((((.(((((((.(((.(((..........))).)))))))))))))))))).)).))).......)))))).. ( -28.60)
>DroYak_CAF1 9410 107 + 1
-UUUCACAGUU-UUCCACACAAAAGCGAUCCCG----ACCCACAUUUAUGAAUGGAAAGUAUUCUUAAUCUUAUUAUCAUGGGGUGGGUUGCGCUGCGACUGAAAUUUUGUCA
-.....(((((-...........((((....((----((((((.(((((((..((((((....)))..))).....)))))))))))))))))))..)))))........... ( -24.42)
>consensus
AUUUCACAGUUUUUCCACACAAAAGCAAUGCCGACCGACCCACAUUUAUGAAUGGAAAGUAUCCUUAAUCUUAUCAUCAUGGGGUGGGUUGGACUUCGACCGAAAUUUUGUCA
.((((...((((((......)))))).....((((((((((((.(((((((.(((.(((..........))).)))))))))))))))))))...)))...))))........ (-22.42 = -24.26 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:23 2006