Locus 6543

Sequence ID X_DroMel_CAF1
Location 16,377,923 – 16,378,043
Length 120
Max. P 0.992216
window10680

overview

Window 0

Location 16,377,923 – 16,378,043
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -35.11
Consensus MFE -34.17
Energy contribution -33.40
Covariance contribution -0.77
Combinations/Pair 1.11
Mean z-score -2.95
Structure conservation index 0.97
SVM decision value 2.31
SVM RNA-class probability 0.992216
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16377923 120 + 22224390
CCGGCUGCUUUUGCAGAUUUCGCCAUUUUGAGGUCCUUCAAUAACUUCAUUUUGGCUAUAAUCGAGCUGCACUCUAUCAUGUCGUUGGGCCCGCUAACCACAUUCUCUAGCUCUUCCUUG
..((((((....)))).....((((...((((((.........))))))...)))).......((((((.........((((.(((((.....))))).))))....))))))..))... ( -29.22)
>DroSec_CAF1 4860 120 + 1
CCGGCUGCUUUUGCAGAUUUCGACAUUUUGAGGUUCUUCAAUAGCUUCAUUUUGUCCAUGAUCGAGCUGCACUCUACCAUGUCGUUGGGCCCGCUAACCACAUUCUGCAGCUCUUCCUUG
..((.(((....)))((((..((((...(((((((.......)))))))...))))...))))((((((((.......((((.(((((.....))))).))))..))))))))..))... ( -35.20)
>DroSim_CAF1 732 120 + 1
CCGGCUGCUUUUGCAGAUUUGGCCAUUUUGAGGUCCUUCAAUAGCUUCAUUUUGGCCAUGAUCGAGCUGCACUCUACCAUGUCGUUGGGCCCGCUAACAACAUUCUGCAGCUCUUCCUUU
..((.(((....)))((((((((((...((((((.........))))))...)))))).))))((((((((.......((((.(((((.....))))).))))..))))))))..))... ( -40.90)
>consensus
CCGGCUGCUUUUGCAGAUUUCGCCAUUUUGAGGUCCUUCAAUAGCUUCAUUUUGGCCAUGAUCGAGCUGCACUCUACCAUGUCGUUGGGCCCGCUAACCACAUUCUGCAGCUCUUCCUUG
..((.(((....)))((((..((((...((((((.........))))))...))))...))))((((((((.......((((.(((((.....))))).))))..))))))))..))... (-34.17 = -33.40 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:22 2006