Locus 6322

Sequence ID 3R_DroMel_CAF1
Location 16,517,533 – 16,517,653
Length 120
Max. P 0.583948
window10313

overview

Window 3

Location 16,517,533 – 16,517,653
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.38
Mean single sequence MFE -32.54
Consensus MFE -22.42
Energy contribution -24.66
Covariance contribution 2.24
Combinations/Pair 1.06
Mean z-score -1.97
Structure conservation index 0.69
SVM decision value 0.10
SVM RNA-class probability 0.583948
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16517533 120 + 27905053
GAUUUGACGCAGCCAACUCGAGUGGGAGUGACCGGCAAAGAAAGUACCAUUCAAUUUGAUUGCUAUUAAGGGGAAUUCGAAAAUCCAACAAUGAAGUAAACAACUUUAGUUGGGAUGAGC
..(((((....(((.((((......))))....)))............((((..((((((....))))))..)))))))))..((((((..((((((.....))))))))))))...... ( -25.10)
>DroSec_CAF1 73287 120 + 1
GAUUGGAGGCAGUCAACUUGAGUGGGAGUGACCGGCAAAGAAAGUCCCAAUCAAUUGGAUUGCUAUUAAGGGGGAUUCGAAAAUCCAACAAUGAAGUAAACAACUUUAGUUGGAAUGAGC
((((((.(((..((...(((..(((......))).))).))..)))))))))..(((((((.((......)).)))))))...((((((..((((((.....))))))))))))...... ( -33.70)
>DroSim_CAF1 77886 120 + 1
GAUUGGAGGCAGCCAACUUGAGUGGGAGUGACCGGCAAAGAAAGUCCCAUUCAAUUGGAUUGCUAUUAAGGGGGAUUCGAAAAUCCAACAAUGAAGUAAACAACUUUAGUUGGGAUGAGC
..((((.(((((((((.((((((((((.(...(......)..).)))))))))))))).))))).))))..............((((((..((((((.....))))))))))))...... ( -35.30)
>DroEre_CAF1 75388 116 + 1
GAUUGGAGGCAGCCAACUUGAGUGGGAGUGAGCGGCAA----AGUCCCAUUCAAUUGGAUUGCUAUUAAGGAGGAUUCGGAAAUCCAACCACGAAGUAAACAACUUUAGAUGGAAGGAGC
..((((.(((((((((.((((((((((.(.........----).)))))))))))))).))))).))))...(((((....)))))..(((((((((.....))))).).)))....... ( -34.30)
>DroYak_CAF1 69781 116 + 1
GAUUGGAGGCAGCCCACUUGAGUGGGACUGCCCGGCAA----AGUCCCAUUCAAUUAUAUUGCUAUUAUAGCGGAUUCGAAAAUCCAGCAAUGAAUUAAACAACUUUAAGUGGAAUGAGU
.........((..((((((((((((((((.........----))))))))))((((.(((((((........(((((....))))))))))))))))..........))))))..))... ( -34.30)
>consensus
GAUUGGAGGCAGCCAACUUGAGUGGGAGUGACCGGCAAAGAAAGUCCCAUUCAAUUGGAUUGCUAUUAAGGGGGAUUCGAAAAUCCAACAAUGAAGUAAACAACUUUAGUUGGAAUGAGC
.......(((((((((.((((((((((.(.............).)))))))))))))).)))))...................((((((..((((((.....))))))))))))...... (-22.42 = -24.66 +   2.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:40 2006