Locus 4711

Sequence ID 2L_DroMel_CAF1
Location 13,515,007 – 13,515,119
Length 112
Max. P 0.517806
window7455

overview

Window 5

Location 13,515,007 – 13,515,119
Length 112
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 87.85
Mean single sequence MFE -22.04
Consensus MFE -16.35
Energy contribution -17.17
Covariance contribution 0.81
Combinations/Pair 1.04
Mean z-score -1.40
Structure conservation index 0.74
SVM decision value -0.03
SVM RNA-class probability 0.517806
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13515007 112 + 22407834
AAUGCCAGAAGGCAUCAAGCCAAAAAACCUAAAAACAGUGUUGCAAACGUUUCAGCAUGUGGCUA-UACACCGCAGACAAUUUCACAAUUGUCUCACUAAAAGGAUGAUAUUC
...(((....)))(((((((((...............((((((.((....)))))))).))))).-......(.((((((((....)))))))))..........)))).... ( -22.29)
>DroSec_CAF1 6415 112 + 1
AAUGCCAGAAGGCAUCAAGCCAAAAAACCUAAAAACAGUGUUGCUAACGUUUCAGCAUGUGGCUA-UACACCGCAGACAAUUUUACACGUGUCUCAAUAAAAGAUUAAUAAUC
.(((((....)))))..(((((...............(((((((....)...)))))).))))).-......(.(((((..........)))))).................. ( -18.39)
>DroEre_CAF1 6310 112 + 1
AAUGCCAGAAGGCAUCAAGCCAAAAAACCUAAAAACAGAGUUGCAAACGUUUCAGCAUGUGGCUG-UACACUGCAAACAAUUUUACAAUUGUCGUGAAGACAGAAUGAUCAUC
..((((....))))(((.......................(((((...((..((((.....))))-.))..)))))............(((((.....)))))..)))..... ( -20.10)
>DroYak_CAF1 6622 111 + 1
AAUGCCAGAAGGCAUCAAGCCAAA-AACCUAAAAACAGUGUUGCAAACGUUUCAGCAUGUGGCUGAUACACAGCAGAUAAUUUUACAAUUGUCGUGCUGA-AUAAUGAUAAUC
...(((....)))(((((((((..-............((((((.((....)))))))).)))))......((((((((((((....))))))).))))).-....)))).... ( -27.36)
>consensus
AAUGCCAGAAGGCAUCAAGCCAAAAAACCUAAAAACAGUGUUGCAAACGUUUCAGCAUGUGGCUA_UACACCGCAGACAAUUUUACAAUUGUCGCAAUAAAAGAAUGAUAAUC
.(((((....)))))..(((((...............((((((.........)))))).)))))...........(((((((....))))))).................... (-16.35 = -17.17 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:19 2006