Locus 1588

Sequence ID X_DroMel_CAF1
Location 4,552,287 – 4,552,404
Length 117
Max. P 0.682912
window2604

overview

Window 4

Location 4,552,287 – 4,552,404
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.64
Mean single sequence MFE -47.85
Consensus MFE -28.67
Energy contribution -29.95
Covariance contribution 1.28
Combinations/Pair 1.31
Mean z-score -2.15
Structure conservation index 0.60
SVM decision value 0.31
SVM RNA-class probability 0.682912
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4552287 117 + 22224390
GCUGGCGGAGGUGUGCUUUGGCAAGCCGAAGAAGACGCCGGCCAGCGAGAUCAACGACGUGCCAGUGGGCGCAGAGAUUGA---CGUGGCCAAGGCCAAGGAAAGGAAGGCCAAGCAGGA
((((((...(((((.((((((....))))))...))))).))))))............(((((....))))).....(((.---..(((((....((.......))..)))))..))).. ( -47.30)
>DroVir_CAF1 5177 117 + 1
CAUCUCGGAGGUUUGCUUUGGCAAGCCCAAGCGUACGCCACCUGAGGAGAUCAACGAUGUGCCCGUCGGUGAUGCAGCACUUAUGGCUGCCCAGCUGGAAGCAAAGCA---GAAGCAGGA
......((..((.(((((.((....)).))))).)).)).((((.((..((((.(((((....))))).))))(((((.(....)))))))).(((........))).---....)))). ( -38.60)
>DroSec_CAF1 4512 117 + 1
GCUGGCGGAGGUGUGCUUUGGCAAGCCGAAGAAGACGCCGGCCAGCGAGAUCAAUGACGUCCCAGUGGGCGCAGAGAUUGA---CGUGGCCAAGGCCAAGGAACGGCAGGCCAAGCAGGA
((((((...(((((.((((((....))))))...))))).))))))..((((..((.(((((....)))))))..))))(.---..(((((...(((.......))).)))))..).... ( -52.10)
>DroSim_CAF1 4821 117 + 1
GCUGGCGGAGGUGUGCUUUGGCAAGCCGAAGAAGACGCCGGCCAGCGAGAUCAAUGACGUCCCAGUGGGCGCAGAGAUUGA---CGUGGCCAAGGCCAAGGAACGGCAGGCCAAGCAGGA
((((((...(((((.((((((....))))))...))))).))))))..((((..((.(((((....)))))))..))))(.---..(((((...(((.......))).)))))..).... ( -52.10)
>DroEre_CAF1 4458 117 + 1
GCUGGCGGAAGUGUGCUUUGGCAAGCCAAAGAAGACGCCGGCCUGCGAGAUCAACGAUGUGCCAGUGGGCGCAGCGAUUGA---CGUGGCCAAGGCCAAGGAAAGGAAGGCCAAGCAGGA
(((((((........((((((....))))))....)))))))((((....((((((.((((((....)))))).)).))))---..(((((....((.......))..))))).)))).. ( -50.40)
>DroYak_CAF1 4274 117 + 1
GCUGGCGGAAGUGUGCUUUGGCAAGCCGCGAAGGACGCCGGCCUGCGAGAUCAACGAUGUGCCAGUGGGCGCCGCGAUAGA---CGUGGCCAAGGCCAAGGAGCGGAAGGCCGAGCAGGA
(((((((.(.((.((.(((.(((.((((((.....)).)))).))).))).))))..).))))))).(((.((((......---(.((((....)))).)..))))...)))........ ( -46.60)
>consensus
GCUGGCGGAGGUGUGCUUUGGCAAGCCGAAGAAGACGCCGGCCAGCGAGAUCAACGACGUGCCAGUGGGCGCAGAGAUUGA___CGUGGCCAAGGCCAAGGAAAGGAAGGCCAAGCAGGA
((((((...(((((.((((((....))))))...))))).))))))............(((((....)))))..............((((....))))...................... (-28.67 = -29.95 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:08 2006