Locus 5963

Sequence ID 3L_DroMel_CAF1
Location 15,977,684 – 15,977,804
Length 120
Max. P 0.984439
window9522

overview

Window 2

Location 15,977,684 – 15,977,804
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.33
Mean single sequence MFE -38.03
Consensus MFE -32.14
Energy contribution -32.30
Covariance contribution 0.16
Combinations/Pair 1.09
Mean z-score -2.13
Structure conservation index 0.85
SVM decision value 1.97
SVM RNA-class probability 0.984439
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15977684 120 + 23771897
UGGCCGCAACUAAUCAGUUUAAUGGCCCGAAAUGGCCGGACUCAAAUGAUCUGUUAGCGGGCGAGAUGAAAGGCCGGCACGGACAAUAGUGAAAAGUGUCCUCGUACAUCAGAGACAUCA
.(.(((((((..((((......(((((......)))))........))))..))).)))).)..((((.......(((((...............)))))(((........))).)))). ( -34.60)
>DroSec_CAF1 6848 120 + 1
UGGCCGCAACUAAUCAGUUUAAUGGCCCGAAAUGACCAGACUCAAAUGAUCUGUUAGCGGGCGAGAUGAAAGGCUGGCACGGACAAUAGUCAAAAGUGUCCUCGUACAUCAGAGACAUCA
.((((.((.((...((......))(((((...((((.(((.((....))))))))).))))).)).))...))))(((((.(((....)))....)))))(((........)))...... ( -34.10)
>DroSim_CAF1 7527 118 + 1
UGGCCGCAGCUAAUCAGUUUAAUGGCCCGAAAUGGCCAGACUCAAAUGAUC--UUAGCGGGCGAGAUGAAAGGCUGGCACGGACAAUAGUCAAAAGUGUCCUCGUACAUCAGAGACAUCA
..(((...((((((((......(((((......)))))........)))).--.)))).)))..((((.......(((((.(((....)))....)))))(((........))).)))). ( -35.34)
>DroEre_CAF1 7165 119 + 1
UGGCUGCAACUAAUCAGUUUAAUGGGCCGAAAUGGCCGG-CUCAAAUGAUCUGUUAGCGGCCGAGAUGAAAGGCUGGCACGGACAAUAGUCAAAAGUGUCCUCGUACAUCAGAGACAUCA
.(((((((((..((((......(((((((.......)))-))))..))))..))).))))))..((((.......(((((.(((....)))....)))))(((........))).)))). ( -42.90)
>DroYak_CAF1 7099 119 + 1
UGGCUGCAACUAAUCAGUUUAAUGGCCCGAAAUGGCCGG-GUCAAAUGAUCUGUUAGCGGCCGAGAUGAAAGGCUGGCACGGACAAUAGUCAAAAGUGUCCUCGUACAUCAGAGACAUCA
.(((((((((..((((......(((((((.......)))-))))..))))..))).))))))..((((.......(((((.(((....)))....)))))(((........))).)))). ( -43.20)
>consensus
UGGCCGCAACUAAUCAGUUUAAUGGCCCGAAAUGGCCGGACUCAAAUGAUCUGUUAGCGGGCGAGAUGAAAGGCUGGCACGGACAAUAGUCAAAAGUGUCCUCGUACAUCAGAGACAUCA
.(.(((((((..((((......(((((......)))))........))))..))).)))).)..((((.......(((((.(((....)))....)))))(((........))).)))). (-32.14 = -32.30 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:14 2006