Locus 3952

Sequence ID 2L_DroMel_CAF1
Location 11,520,798 – 11,520,918
Length 120
Max. P 0.907384
window6232

overview

Window 2

Location 11,520,798 – 11,520,918
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.33
Mean single sequence MFE -48.92
Consensus MFE -41.52
Energy contribution -41.88
Covariance contribution 0.36
Combinations/Pair 1.14
Mean z-score -1.67
Structure conservation index 0.85
SVM decision value 1.05
SVM RNA-class probability 0.907384
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11520798 120 + 22407834
GACCUUGUCCUUCAAUUCGGCCAUUGUACCCAUCUGACACUGCCGCCAGGUGGGCAGCAUCAGUCCACGGCUCACAGUCGGCGAGGGCAGAGAUGCCUGGCUGGGAAUAAGGGACUUCAC
......((((((...((((((((.....((((((((.(......).))))))))..(((((.((((.((((.....))))....))))...))))).))))))))....))))))..... ( -44.90)
>DroSec_CAF1 1806 120 + 1
GACCUUUUCCUUCAACUCGGCCAUUGUACCCACCUGACACUGCCGCCAGGUGGGCAGCAUCAGUCCACGGCUCACAGUCGGCGAGGGCAGAGAUGCCUGGCUGGGAACCAGGGACUUCAC
......(((((....((((((((.....((((((((.(......).))))))))..(((((.((((.((((.....))))....))))...))))).))))))))....)))))...... ( -46.80)
>DroSim_CAF1 1643 120 + 1
GACUUUUUCCUUCAACUCGGCCAUUGUACCCACCUGACACUGCCGCCAGGUGGGCAGCAUCAGUCCACGGCUCACAGUCGGCGAGGGCAGAGAUGCCUGGCUGGGAACCAGGGACUUCAC
......(((((....((((((((.....((((((((.(......).))))))))..(((((.((((.((((.....))))....))))...))))).))))))))....)))))...... ( -46.80)
>DroEre_CAF1 1825 120 + 1
ACCCUUGUCCUUCAGUUCGGCCAUUAUACCCACCUGACACUGCCGCCAGGUGGGCAGCAUCAGACCUCGGCUCACAGUCGGCGUGGGCAGGGAUGGCUGGCUGGGAACAAGGGACUUCAC
.(((((((((..((((.((((((((...(((((((((..(((((........)))))..))))...(((((.....))))).)))))....)))))))))))))).)))))))....... ( -56.20)
>DroYak_CAF1 1883 120 + 1
GCUCUUGUCCUUCAAUUCGGCCAUGACACCCACCUGGCACUGCCGCCAGGUGGGCAGCAUUAGACCGCGGUUCACAGUGGGCGUGGCCAGAGAUGUCUGGCUGGGAACCAGGGUCUUCAC
(((((..((((......((.(((((((.((((((((((......))))))))))..((........)).)))....)))).)).(((((((....)))))))))))...)))))...... ( -49.90)
>consensus
GACCUUGUCCUUCAAUUCGGCCAUUGUACCCACCUGACACUGCCGCCAGGUGGGCAGCAUCAGUCCACGGCUCACAGUCGGCGAGGGCAGAGAUGCCUGGCUGGGAACCAGGGACUUCAC
......((((((...((((((((.....((((((((.(......).))))))))..(((((.((((.((.(........).)).))))...))))).))))))))....))))))..... (-41.52 = -41.88 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:36 2006