Locus 3556

Sequence ID X_DroMel_CAF1
Location 9,530,526 – 9,530,628
Length 102
Max. P 0.542989
window5821

overview

Window 1

Location 9,530,526 – 9,530,628
Length 102
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 95.49
Mean single sequence MFE -15.78
Consensus MFE -14.08
Energy contribution -13.96
Covariance contribution -0.12
Combinations/Pair 1.10
Mean z-score -1.17
Structure conservation index 0.89
SVM decision value 0.02
SVM RNA-class probability 0.542989
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9530526 102 + 22224390
UUUUUCAUUUUUCCCGGCCCACACAAAAAUCGCAAAAAUAUUUGGCGAAAAUACGAAAUUCAAGAAAAUGCCGUAGAAAAUUUGAAAAAAAUUUCAGCCCGA
(((((((.(((((.((((...........((((...........))))......(.....)........))))..)))))..)))))))............. ( -15.70)
>DroSec_CAF1 14362 102 + 1
UUUUUCAUUUUUCCCGGCCCACACAAAAAUCGCAAAAAUAAUUGGCGAAAAUACGAAAUUCAAGAAAAUGCCGUAGAAAAUUUGAAAAAAAUUUCAGCCCGA
(((((((.(((((.((((...........((((...........))))......(.....)........))))..)))))..)))))))............. ( -15.70)
>DroSim_CAF1 13868 102 + 1
UUUUUCAUUUUUCCCGGCCCACACAAAAAUCGCAAAAAUAAUUGGCGAAAAUACGAAAUUCAAGAAAAUGCCGUAGAAAAUUUGAAAAAAAUUUCAGCCCGA
(((((((.(((((.((((...........((((...........))))......(.....)........))))..)))))..)))))))............. ( -15.70)
>DroEre_CAF1 14685 102 + 1
UUUUUUAUUUUUCCCGGCCCGCACAAAAAUCGUAAAAAUAAUUGGCAAAAAUACGAAAUUCAAGAAAAUGCCGUAGAAAAUUUGAAAAAAUUUCCGGCCAGA
...............((((........................((((.....................))))...(.((((((....)))))).)))))... ( -14.80)
>DroYak_CAF1 14954 102 + 1
UUUUUCAUUUUUCCCGGCCCGCACAAAAAUCGCAAAAAUAAUUGGCGAAAAUACGAAAUUCAAGAAAAUGCCGUAGAAAAUUUGAAAAAAUUUCCGGCCAGA
...............((((..........((((...........))))...((((..(((......)))..))))(.((((((....)))))).)))))... ( -17.00)
>consensus
UUUUUCAUUUUUCCCGGCCCACACAAAAAUCGCAAAAAUAAUUGGCGAAAAUACGAAAUUCAAGAAAAUGCCGUAGAAAAUUUGAAAAAAAUUUCAGCCCGA
(((((((.(((((.((((...........((((...........))))......(.....)........))))..)))))..)))))))............. (-14.08 = -13.96 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:20 2006