Locus 6948

Sequence ID X_DroMel_CAF1
Location 17,408,008 – 17,408,114
Length 106
Max. P 0.548638
window11352

overview

Window 2

Location 17,408,008 – 17,408,114
Length 106
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 79.81
Mean single sequence MFE -33.23
Consensus MFE -19.93
Energy contribution -21.22
Covariance contribution 1.28
Combinations/Pair 1.28
Mean z-score -1.58
Structure conservation index 0.60
SVM decision value 0.03
SVM RNA-class probability 0.548638
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17408008 106 + 22224390
GGAGUCAUCGGCCAAAGAUGGCGAAUCAAAGCU-AUUGUUAUUGCGAUAGGCCAUGAAUAAAUCCGGUUUCAUUUUUCGAAUGGGUGUCGCCGGGAACUCCAACGGA
((((((((.((((...((((((........)))-)))((....))....)))))))).....((((((..(((((.......)))))..))))))..))))...... ( -35.00)
>DroVir_CAF1 2289 97 + 1
UGUUUCGUCUAGAAG---CGGCGA-------UGAGCUGUUGCUGCGAUAUUUAAAAAACAGAUCCGGCUUCAUUUGACGCAUGGGCGUUGUAGGCAUAUCCAGCAUG
.(((((.....))))---)(((..-------...)))..(((((.(((((......(((.(.((((((.((....)).)).))))))))......)))))))))).. ( -25.50)
>DroSec_CAF1 1528 106 + 1
GGAGUCAUCGGCCAAAGAUGGCGAAUCAAGGCU-AUUGUUGUUGCGAUAGGCCAUAAAUAAAUCCGGUUUCAAUUGGCGAAUGGGUGUGGCCGGGAACUCCAACGGA
(((((..(((((((...(((((.........((-(((((....))))))))))))......(((((..(((.......)))))))).)))))))..)))))...... ( -36.30)
>DroSim_CAF1 1347 106 + 1
GGAGUCAUCGGCCAAAGAUGGCGAAUCAAGGCU-AUUGUUGUUGCGAUAGGCCAUAAAUAAAUCCGGUUUCAAUUGACGAAUGGGUGUGGCCGGGAACUCCAACGGA
(((((..(((((((...(((((.........((-(((((....))))))))))))......(((((...((....))....))))).)))))))..)))))...... ( -36.80)
>DroEre_CAF1 1555 106 + 1
CGAGUCAUCGACUAUCGAUGGCGAAUCAAUGCA-AUUGUUGUUGCGAUAGGCCAUGAAUAAAUCCGGUUUCAUUUGGCGAAUGGGCGUGGCCGGGAACUCCAACAGG
...(((((((.....))))))).......((((-((....))))))...(((((((..((...((((......))))....))..))))))).((....))...... ( -32.70)
>DroYak_CAF1 1531 106 + 1
GGAGUCAUCAGCUAUCGAUGGCGAAUCAAAGCU-AUUGUUGUUGCGAUAGGCCAUGAAUAAAUCCGGUUUCAUUUGGCGAAUGGGUGUGGCCGGGAACUCCAACGGA
(((((..((.((...(((((((........)))-)))).....))....(((((((..((...((((......))))....))..)))))))))..)))))...... ( -33.10)
>consensus
GGAGUCAUCGGCCAAAGAUGGCGAAUCAAAGCU_AUUGUUGUUGCGAUAGGCCAUAAAUAAAUCCGGUUUCAUUUGGCGAAUGGGUGUGGCCGGGAACUCCAACGGA
(((((....((((....((.((((..(((......)))...)))).)).)))).........((((((..(((((.......)))))..)))))).)))))...... (-19.93 = -21.22 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:30 2006