Locus 4003

Sequence ID X_DroMel_CAF1
Location 10,596,994 – 10,597,084
Length 90
Max. P 0.819654
window6581

overview

Window 1

Location 10,596,994 – 10,597,084
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 95.41
Mean single sequence MFE -23.26
Consensus MFE -20.02
Energy contribution -20.22
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 0.86
SVM decision value 0.68
SVM RNA-class probability 0.819654
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10596994 90 + 22224390
UGUCGCCUGCGAUAACAGAUACAAAAUGAGCGAUUAGCGAAUAGACGUCAAUCGAUGGCUUGUCGAUUUUCUCGAUAACACAAGUGCUCU
(((((....))))).............((((((((..((......))..))))..((..(((((((.....)))))))..))...)))). ( -23.10)
>DroSec_CAF1 5870 89 + 1
UGUCGCCUGCGAUAACAGAUACAAAAUGAGCGAUUAGCG-AUAGACGUCAAUCGAUGGCUUGUCGAUUUUCUCGAUAACACAAGCGCUCU
(((((....))))).............((((((((..((-.....))..))))....(((((((((.....)))).....))))))))). ( -23.70)
>DroSim_CAF1 6366 89 + 1
UGUCGCCUGCGAUAACAGAUACAAAAUGAGCGAUUAGCG-AUAUACGUCAAUCGAUGGCUUGUCGAUUUUCUCGAUAACACAAGUGCUCU
(((((....))))).............((((((((..((-.....))..))))..((..(((((((.....)))))))..))...)))). ( -22.90)
>DroEre_CAF1 5895 89 + 1
UGUCGCCUGCGAUAACAGAUACAAAAUGAGCGAUUAGCG-AUUGACGUCAAUCGAUAGCGUGUCGAUUUUCUCGAUAACAAAAGUGCUCU
(((((....))))).............(((((.....((-((((....))))))......((((((.....)))))).......))))). ( -22.20)
>DroYak_CAF1 6015 89 + 1
UGUCGCCUGCGAUAACAGAUAGAAAAUGAGCGAUUAGCG-AUUGACGUCAAUCGAUUGAUUGUCGAUUUUCUCGAUAACACAAGUGCUCU
(((((.(((......)))..(((((((..((((((((((-((((....)))))).))))))))..))))))))))))............. ( -24.40)
>consensus
UGUCGCCUGCGAUAACAGAUACAAAAUGAGCGAUUAGCG_AUAGACGUCAAUCGAUGGCUUGUCGAUUUUCUCGAUAACACAAGUGCUCU
(((((....))))).............((((((((..((......))..))))......(((((((.....))))))).......)))). (-20.02 = -20.22 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:00 2006