Locus 14

Sequence ID 4_DroMel_CAF1
Location 172,876 – 172,976
Length 100
Max. P 0.655011
window24

overview

Window 4

Location 172,876 – 172,976
Length 100
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 79.02
Mean single sequence MFE -20.15
Consensus MFE -15.27
Energy contribution -14.90
Covariance contribution -0.37
Combinations/Pair 1.23
Mean z-score -1.56
Structure conservation index 0.76
SVM decision value 0.25
SVM RNA-class probability 0.655011
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 172876 100 - 1281640
AAAUAU-----AUUUGCUUCAGAUGUUUCUGGAAGACUACUUGUCUUCGAUUUUUUAAUGUGUCUUGAAUGAUUUUUUCGAGCAGAUUUUGCUUGUUGUAUUUCU
((((((-----(...((..((((....))))((((((.....))))))........(((.((.((((((.......)))))))).)))..))....))))))).. ( -22.60)
>DroSec_CAF1 12171 100 - 1
AAAGAU-----AUUUGCUUCAGAUUUUUCUGGAAGACUACUUGUCUUCGAUUUUUGAACGAAUCCUGCAUGAUUUUGCCGAGCAGAGUUUGCUUGUUGUAUUUCU
((((((-----........((((....))))((((((.....)))))).))))))..((((.....(((.((((((((...)))))))))))...))))...... ( -23.10)
>DroEre_CAF1 9065 105 - 1
ACAUCUGGUGAUUUUGUUUCAGAUUUUUCUGGAAGGAUAUUUGUCUUUGAUUUUUUAACGAAUCUUGAAUGAUUUUGCUGAGCAGAUUUAGAUUGUUGUAUUUGA
.((...((..(..((.(((((((....))))))).))...)..))..))......((((.(((((.....((.(((((...))))).)))))))))))....... ( -17.30)
>DroYak_CAF1 13870 93 - 1
------------UUUGCUUCAGUUUUUUCUGGAAGGCUAUUUGUCUUUAAUUUUUUAACAAGUCUUGACUGAUUUUGCUGAGCAGAUUUAGGUUCUUGUAUUUGA
------------.......(((......)))((((((.....)))))).........(((((......((((.(((((...))))).))))...)))))...... ( -17.60)
>consensus
AAAUAU_____AUUUGCUUCAGAUUUUUCUGGAAGACUACUUGUCUUCGAUUUUUUAACGAAUCUUGAAUGAUUUUGCCGAGCAGAUUUAGCUUGUUGUAUUUCA
............(((((((((((....))))((((((.....))))))...........(((((......)))))....)))))))................... (-15.27 = -14.90 +  -0.37) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:14 2006