Locus 1974

Sequence ID X_DroMel_CAF1
Location 5,390,924 – 5,391,044
Length 120
Max. P 0.630715
window3214

overview

Window 4

Location 5,390,924 – 5,391,044
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.05
Mean single sequence MFE -29.50
Consensus MFE -24.09
Energy contribution -24.40
Covariance contribution 0.31
Combinations/Pair 1.03
Mean z-score -1.54
Structure conservation index 0.82
SVM decision value 0.20
SVM RNA-class probability 0.630715
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5390924 120 + 22224390
CGGCGAAAUGCCGUGAAAAAAAAAACCGAUUUCCAACCCAUCCGUUCGACGAUCCCGAACUUAAAGCAAUUGAGUGAGCGAGGUGAGUGGUUAAAAAAGGGCAAAUUCGCCAAGAAAUCG
((((.....)))).............(((((((.(((((((((((((..((....)).((((((.....))))))))))).))))...)))).......(((......)))..))))))) ( -32.30)
>DroSec_CAF1 72025 98 + 1
CG----------------------ACCGAUUUCCAACCCAUCCGUUCGACGAUCCCGAACUUAAAGCAAUUGAGUGAGCGAGGUGAGUGGUUAAAAAAGGGCAAAUUCGCCAAGAAAUCG
..----------------------..(((((((.(((((((((((((..((....)).((((((.....))))))))))).))))...)))).......(((......)))..))))))) ( -27.10)
>DroSim_CAF1 59768 98 + 1
CG----------------------ACCGAUUUUCAACCCAUCCGUUCGACGAUCCCGAACUUAAAGCAAUUGAGUGAGCGAGGUGAGUGGUUAAAAAAGGGCAAAUUCGCCAAGAAAUCG
..----------------------..(((((((.(((((((((((((..((....)).((((((.....))))))))))).))))...)))).......(((......)))..))))))) ( -24.90)
>DroYak_CAF1 65611 119 + 1
CGGCGAAAAUGCGCGAUAAAA-UUCGCGAUUUCGAAACCAUCCGUUCGACGAUUCCGUACCUAAAGCAAUUGAGUGAGCGAGGUGAGUGGUUAAAAAAGGGCAAAUUCGCCAAGAAAUCG
.((((((..(((((((.....-.))))..............((.((..((.((((...((((...((..........)).)))))))).))..))...)))))..))))))......... ( -33.70)
>consensus
CG______________________ACCGAUUUCCAACCCAUCCGUUCGACGAUCCCGAACUUAAAGCAAUUGAGUGAGCGAGGUGAGUGGUUAAAAAAGGGCAAAUUCGCCAAGAAAUCG
..........................(((((((.(((((((((((((..((....)).((((((.....))))))))))).))))...)))).......(((......)))..))))))) (-24.09 = -24.40 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:15 2006