Locus 8046

Sequence ID X_DroMel_CAF1
Location 20,031,541 – 20,031,661
Length 120
Max. P 0.788111
window13203

overview

Window 3

Location 20,031,541 – 20,031,661
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.54
Mean single sequence MFE -31.38
Consensus MFE -24.20
Energy contribution -23.32
Covariance contribution -0.88
Combinations/Pair 1.30
Mean z-score -0.78
Structure conservation index 0.77
SVM decision value 0.58
SVM RNA-class probability 0.788111
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20031541 120 + 22224390
CUCAACUACCAGUUAACUAUAUCGUCCUAGACCUCAUCGCUCUGGUUCAUCUUGAUCUCGCUAAGAUGGGUGUUGAACCGCGACCAUUCGUCGCGCGAUGGCUGCGCCAGGUUCUCGGCC
.........((((..........(((...)))..((((((...((((((.(((.((((.....)))).)).).))))))(((((.....))))))))))))))).(((........))). ( -34.90)
>DroGri_CAF1 2649 96 + 1
------------------------GUUUAGACCUCGUCGUUUUGGUUCAUCUUGAGCUCAUUGAGUGUCGCAUUGAAUCGCGACCAUUCAUCGCGCGACGGCAGCGCCAGAUGCUCAGCC
------------------------.....((((..........))))....((((((((..((((((((((........)))).))))))..((((.......))))..)).)))))).. ( -28.90)
>DroSec_CAF1 3403 120 + 1
AUCAACUACCAGUUAACCAUAUCGUCCUAGACCUCGUCGCUCUGGUUCAUCUUGAUCUCGCUAAGAUGGGUGUUGAACCGCGACCAUUCGUCGCGCGAUGGCUGCGCCAGAUUCUCGGCC
.........((((..........(((...)))..((((((...((((((.(((.((((.....)))).)).).))))))(((((.....))))))))))))))).(((........))). ( -34.50)
>DroWil_CAF1 3160 100 + 1
--------------------UUCGCCCUAGACCUCAUCGCUCUGGUUCAUCUUGAGCUCACUGAGCGUCGUAUUGAAUCGCGACCAUUCAUCGCGCGACGGUAGCGCCAAAUGCUCGGCA
--------------------...(((....(((...((((...((((((...(((((((...)))).)))...))))))((((.......)))))))).)))((((.....)))).))). ( -30.90)
>DroMoj_CAF1 3585 96 + 1
------------------------GCUUAGACCUCAUCGUUCUGAUUCAUUUUGAGCUCAUUGAGUGUCGCAUUGAAUCGCGACCAUUCAUCGCGCGAUGGCAACGCCAAGUGCUCAGCC
------------------------(((((((....(((.....)))....)))))))....((((((((((........)))).))))))..((((..((((...)))).))))...... ( -27.70)
>consensus
_____________________UCGGCCUAGACCUCAUCGCUCUGGUUCAUCUUGAGCUCACUGAGAGUCGUAUUGAAUCGCGACCAUUCAUCGCGCGAUGGCAGCGCCAGAUGCUCGGCC
.................................(((((((...((((((......(((.....))).......))))))((((.......)))))))))))....(((........))). (-24.20 = -23.32 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:00 2006