Locus 1694

Sequence ID 3R_DroMel_CAF1
Location 4,862,822 – 4,862,917
Length 95
Max. P 0.735179
window2792

overview

Window 2

Location 4,862,822 – 4,862,917
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 92.95
Mean single sequence MFE -21.77
Consensus MFE -17.10
Energy contribution -18.26
Covariance contribution 1.16
Combinations/Pair 1.17
Mean z-score -1.71
Structure conservation index 0.79
SVM decision value 0.43
SVM RNA-class probability 0.735179
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4862822 95 + 27905053
AAAGGCAGUGCUGUUCGAAGGAAAAGAAAAGGGAAAGGACUUCAGACAGGCCAAGGAAAAUGAAGGAGCCGUUUGAGGAGCAGUUGUCGUGUUUC
...(((((((((.(((....)))................((((((((.((((.............).))))))))))))))).)))))....... ( -24.42)
>DroSec_CAF1 43106 95 + 1
AAAGGCAGAGCUGUUCGAAGGAAAAUAAAAGGGAAAGGACUUCAGACAGGCCAAGGAAAAUGAAGGAGCCGUUUGAGGAGCAGUUGUCGAGUUUC
...((((..(((((((....)).................((((((((.((((.............).))))))))))).)))))))))....... ( -22.42)
>DroSim_CAF1 45093 95 + 1
AAAGGCAGAGCUGUUCGAAGGAAACUAAAAGGGAAAGGACUUCAGACAGGCCAAGGAAAAUGAAGGAGCCGUUUGAGAAGCAGUUGUCGAGUUUC
...(((((.(((.(((((((....))..........((.(((((......(....)....)))))...))..))))).)))..)))))....... ( -21.50)
>DroEre_CAF1 43672 95 + 1
AAAGGCAGCGCUGUUCGAAGGAAAUUAAAAGGGAAAGGACUUCAGACAAGCCAAGGAAAAUGAAGGAGCUGUGCAAGGAGCAGUUGUCGAGUUUC
...(((((((((.(((....)))................(((((......(....)....))))).)))..(((.....)))))))))....... ( -20.20)
>DroYak_CAF1 43932 95 + 1
AAAGGCAGCGUUGUUCGAAGGAAAAUAAAAGCGAAAGGACUUCAGACAGGCCAAGGAAAAUGAAGGAGCUGUGCAAGGAGCAGUUGUCGAGUCUC
...(((((((((.(((....))).......(((...((.(((((......(....)....)))))...)).)))....))).))))))....... ( -20.30)
>consensus
AAAGGCAGAGCUGUUCGAAGGAAAAUAAAAGGGAAAGGACUUCAGACAGGCCAAGGAAAAUGAAGGAGCCGUUUGAGGAGCAGUUGUCGAGUUUC
...(((((((((.(((....)))................((((((((.((((.............).)))))))))))))).))))))....... (-17.10 = -18.26 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:03 2006