Locus 3186

Sequence ID 3R_DroMel_CAF1
Location 8,459,546 – 8,459,666
Length 120
Max. P 0.885397
window5161

overview

Window 1

Location 8,459,546 – 8,459,666
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.08
Mean single sequence MFE -41.88
Consensus MFE -36.26
Energy contribution -36.14
Covariance contribution -0.12
Combinations/Pair 1.12
Mean z-score -1.54
Structure conservation index 0.87
SVM decision value 0.94
SVM RNA-class probability 0.885397
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8459546 120 + 27905053
CCGCUUUCAUUGACUACAUUCUGGGCACCACAAAUCAAAGUGCGGUGCACUACGUGGGUCACUCACAGGGAUGCACCACGCUGGUGGUGCUACUCAGCAUGCGUCCGGAGUAUAACCAGU
........((((..((.((((((((((((((.......((((.((((((((..(((((...)))))..)).)))))).)))).)))))(((....)))....))))))))).))..)))) ( -43.70)
>DroSec_CAF1 5446 120 + 1
CCGCUUUCAUUGACUACAUUUUGGCCACCACAAAUCAAAGUGCGGUGCACUAUGUGGGUCACUCACAGGGAAGCACCACGCUGGUGGUGCUCCUCAGCAUGCGUCCGGAGUAUAACCAGU
..((((((..((((..((((((((..........))))))))..)).))...((((((...)))))).)))))).....((((((.(((((((...((....))..))))))).)))))) ( -39.40)
>DroSim_CAF1 5504 120 + 1
CCGCUUUUAUUGACUACAUUUUGGCCACCACAAAUCAAAGUGCGGUGCACUAUGUGGGUCACUCACAGGGAUGCACCACGCUGGUGGUGCUCCUCAGCAUGCGCCCGGAGUAUAACCAGU
................((((((((..........)))))))).((((((((.((((((...)))))).)).))))))..((((((.(((((((...((....))..))))))).)))))) ( -42.20)
>DroEre_CAF1 5604 120 + 1
CCGCAUCCAUAGACUACAUUCUGGCCACUACAAAUCAGAGUGCGUUGCACUACGUGGGUCACUCGCAGGGUUGCACCACGCUGGUGGUGCUCCUCAGCAUGCGGCCGCAAUACAACCAGU
..((......(((......)))((((...........(((((..(..(.....)..)..)))))((.(((..(((((((....)))))))..))).))....))))))............ ( -39.40)
>DroYak_CAF1 5565 120 + 1
CCGCAUCCAUGGACUACAUUCUGGCCACUACGAAUCAGAGUGCGUUGCACUACGUGGGUCACUCGCAGGGUUGCACCACGCUGGUGGUGCUCCUCAGCAUGCGGCCGGAGUACAAUCAGU
(((......))).....(((((((((.(((((......(((((...))))).))))).......((.(((..(((((((....)))))))..))).))....)))))))))......... ( -44.70)
>consensus
CCGCUUUCAUUGACUACAUUCUGGCCACCACAAAUCAAAGUGCGGUGCACUACGUGGGUCACUCACAGGGAUGCACCACGCUGGUGGUGCUCCUCAGCAUGCGGCCGGAGUAUAACCAGU
.................(((((((((...((........))(((.(((.....(((((...))))).(((..(((((((....)))))))..))).)))))))))))))))......... (-36.26 = -36.14 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:11 2006