Locus 3561

Sequence ID 2R_DroMel_CAF1
Location 11,876,858 – 11,876,954
Length 96
Max. P 0.665256
window5801

overview

Window 1

Location 11,876,858 – 11,876,954
Length 96
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.94
Mean single sequence MFE -41.14
Consensus MFE -31.86
Energy contribution -33.42
Covariance contribution 1.56
Combinations/Pair 1.21
Mean z-score -1.57
Structure conservation index 0.77
SVM decision value 0.28
SVM RNA-class probability 0.665256
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11876858 96 - 20766785
UGGUUGCGUCUGUGACCGUUGUUUCUGGGCAAUGCCACAGGAGCAAGG------------------------AGGCUGUGUCUGCUGAGCAAAGUCACUGGUUGCAGUUGUGGCAGUCGA
..((..((.(((..(((.((((((((((((...))).)))))))))((------------------------.((((.((((....)).)).)))).)))))..))).))..))...... ( -39.10)
>DroSec_CAF1 17301 108 - 1
UGGUUGCGUCUGUGACCGUUGUUUCUGGGCAAUGCCACAUGAGCAAGCAUUCGGCU------------CCUGCGGCUGUGUCUGCUGAGCAAAGUCGCUGGUUGCAGUUGUGGCAGUCGA
..((..((.(((..(((..(((((.(((((...))).)).)))))((((((..(((------------(..((((......)))).))))..))).))))))..))).))..))...... ( -41.30)
>DroSim_CAF1 16886 108 - 1
UGGUUGCGUCUGUGACCGUUGUUUCUGGGCAAUGCCACAUGAGCAAGCAUUCGGCU------------CCUGCGGCUGUGUCUGCUGAGCAAAGUCGCUGGUUGCAGUUGUGGCAGUCGA
..((..((.(((..(((..(((((.(((((...))).)).)))))((((((..(((------------(..((((......)))).))))..))).))))))..))).))..))...... ( -41.30)
>DroEre_CAF1 19456 108 - 1
UGGCUGCGUCUGUGAGCGUUCCUUUUGGGCAAUGCUGCAGGAGCACUUAUUCUUCU------------GCUGCGGCAGUGUCUGCUGACUAAAGUCGCUGGUGGCAGUUGUGGCGGUUGA
..((..((.((((.(.(.........(((((.((((((((.((...........))------------.)))))))).)))))((.(((....))))).).).)))).))..))...... ( -39.40)
>DroYak_CAF1 17444 120 - 1
UGGCUGCGUCUGUGAUCGUUGUUUCUGGGCAAUGCCACAGGAGCAAUCAUCCUUCUUCGGCACCUGUGGCUGAGGCUGUGUUUGCUGUGAAAAGUCGCUGGUAGCAGUUGUGGCAGUCGA
.((((((......(((.(((((((((((((...))).)))))))))).)))........(((((.((((((..(((.......)))......)))))).))).)).......)))))).. ( -44.60)
>consensus
UGGUUGCGUCUGUGACCGUUGUUUCUGGGCAAUGCCACAGGAGCAAGCAUUCGGCU____________CCUGCGGCUGUGUCUGCUGAGCAAAGUCGCUGGUUGCAGUUGUGGCAGUCGA
..((..((.((((((((.((((((((((((...))).))))))))).........................((((((.((((....)).)).)))))).)))))))).))..))...... (-31.86 = -33.42 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:34 2006