Locus 4581

Sequence ID 3L_DroMel_CAF1
Location 13,125,859 – 13,125,979
Length 120
Max. P 0.738426
window7177

overview

Window 7

Location 13,125,859 – 13,125,979
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.25
Mean single sequence MFE -21.79
Consensus MFE -19.60
Energy contribution -20.00
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.37
Structure conservation index 0.90
SVM decision value 0.44
SVM RNA-class probability 0.738426
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13125859 120 - 23771897
GCCACGACGAGAGUGAAAAACAAAACAACAUGUCAAAAAUAAAUGUACAAAAGACAUUUCUGGUAUAUUUUCCAAAUGAAAUAUUAGUUUACUUUUAGCGACGCCAGCGAGGCAGUCAAA
(((.((..(((((((((...............(((.....((((((((...(((....))).))))))))......)))........)))))))))..)).((....)).)))....... ( -22.30)
>DroSec_CAF1 113716 117 - 1
GCCA---CGAGAGUGAAAAACAAAACAACAUGUCAAAAAUAAAUGUACAAAAGACAUUUCUGGUAUAUUUUCCAAAUGAAAUAUUAGUUUACUUUUAGCGACGCCAGCGAGGCAGUCAAA
((((---(....))).......((((......(((.....((((((((...(((....))).))))))))......))).......)))).......))((((((.....))).)))... ( -22.62)
>DroSim_CAF1 111952 120 - 1
GCCAAGACGAGAGUGAAAAACAAAACAACAUGUCAAAAAUAAAUGUACAAAAGACAUUUCUGGUAUAUUUUCCAAAUGAAAUAUUAGUUUACUUUUAGCGACGCCAGCGAGGCAGUCAAA
.....(..(((((((((...............(((.....((((((((...(((....))).))))))))......)))........)))))))))..)((((((.....))).)))... ( -21.50)
>DroEre_CAF1 110689 120 - 1
GCCAAGACGAGAGUGAAAAACAAAACAACAUGUCAAAAAUAAAUGUACAAAAGACAUUUCUGGUAUACUUUUCAAAUGAAAUAUUAGUUUACUUUUAGCGACGCCAGCGAGGCAGUCAAA
.....(..(((((((((............(((((..................)))))..(((((((....(((....)))))))))))))))))))..)((((((.....))).)))... ( -20.67)
>DroYak_CAF1 114012 120 - 1
GCCAGGACGAGAGUGAAAAACAAAACAACAUGUCAAAAAUAAAUGUACAAAAGACAUUUCUGGUAUACUUUUCAAAUGAAAUAUUAGUUUACUUUUAGCGACGCCAGCGCGGCAGUCAAA
(((.....(((((((((............(((((..................)))))..(((((((....(((....))))))))))))))))))).(((.(....)))))))....... ( -21.87)
>consensus
GCCAAGACGAGAGUGAAAAACAAAACAACAUGUCAAAAAUAAAUGUACAAAAGACAUUUCUGGUAUAUUUUCCAAAUGAAAUAUUAGUUUACUUUUAGCGACGCCAGCGAGGCAGUCAAA
........(((((((((...............(((.....((((((((...(((....))).))))))))......)))........)))))))))...((((((.....))).)))... (-19.60 = -20.00 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:28 2006