Locus 6247

Sequence ID 2L_DroMel_CAF1
Location 17,353,060 – 17,353,176
Length 116
Max. P 0.798332
window9981

overview

Window 1

Location 17,353,060 – 17,353,176
Length 116
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 91.33
Mean single sequence MFE -36.28
Consensus MFE -32.54
Energy contribution -31.94
Covariance contribution -0.60
Combinations/Pair 1.19
Mean z-score -1.35
Structure conservation index 0.90
SVM decision value 0.61
SVM RNA-class probability 0.798332
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17353060 116 + 22407834
CAUGCCUUUGCCACACGCAUCCCAAUUUAUUGGAUGGAGCAAGGGGACGGUGGAAUGCCGAGGGGGUUGGCAAUGGCCCAAUGGGUUUUUCUUGUUCUUGUUUCAUUCAUAAUAAU
........(((.....)))...........(((((((((((..(((((((.((((.(((.(..(((((......)))))..).))).))))))))))))))))))))))....... ( -34.90)
>DroSec_CAF1 54905 109 + 1
CAUG------CCACACGCAUCCCAAUUUAUUGGGCGGAGCAAG-GGACGAUGGAAUGCCGAGGGGGCUGGCAAUGGUCCAAUGGGUUUUUCUUGUUCUUGUUUCAUUCAUAAUAAU
.(((------(.....))))(((((....))))).((((((((-(.((((.((((.(((.(..(((((......)))))..).))).)))))))))))))))))............ ( -35.50)
>DroSim_CAF1 51247 110 + 1
CAUG------CCACACGCAUCCCAAUUUAUUGGGCGGAGCAAGGGGACGAUGGAAUGCCGAGGGGGCUGGCAAUGGCCCAAUGGGUUUUUCUUGUUCUUGUUUCAUUCAUAAUAAU
.(((------(.....))))(((((....))))).((((((..(((((((.((((.(((.(..(((((......)))))..).))).)))))))))))))))))............ ( -37.30)
>DroEre_CAF1 52723 116 + 1
CAUGCCUGUGCCACACGCAUCCCAAUUUAUUGGGCGGAACAAGGGGACGGUGGAUUGCCGAGGGGGCUGGCAGUAGCCCAAUGGGUUUUUCUUGUUCUUGUUUCAUUCAUAAUAAU
.((((.((.....)).))))(((((....))))).((((((..(((((((.(((..(((.(..((((((....))))))..).)))..))))))))))))))))............ ( -38.90)
>DroYak_CAF1 49015 116 + 1
CAUGCCUUUGCCUCACGCAUCCCAAUUUAUUGGGUGGAACAAGGGGACGGUAAAAUGCCGAGGGGGCUGGCAGUAGCCCAAUGGGUUUUUCUUGUUCUUGUUUCAUUCAUAAUAAU
........(((.....)))...........(((((((((((..(((((((.((((.(((.(..((((((....))))))..).))))))).))))))))))))))))))....... ( -34.80)
>consensus
CAUGCCU_UGCCACACGCAUCCCAAUUUAUUGGGCGGAGCAAGGGGACGGUGGAAUGCCGAGGGGGCUGGCAAUGGCCCAAUGGGUUUUUCUUGUUCUUGUUUCAUUCAUAAUAAU
....................(((((....))))).((((((((..(((((.((((.(((.(..((((((....))))))..).))).)))))))))))))))))............ (-32.54 = -31.94 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:16 2006