Locus 1314

Sequence ID 3R_DroMel_CAF1
Location 3,863,564 – 3,863,684
Length 120
Max. P 0.718880
window2155

overview

Window 5

Location 3,863,564 – 3,863,684
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.82
Mean single sequence MFE -40.78
Consensus MFE -35.03
Energy contribution -35.52
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.86
SVM decision value 0.39
SVM RNA-class probability 0.718880
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3863564 120 + 27905053
UGGCGCGGUGCGGUUCAGUGUGGUGCAACACAGUUGGUGCCGCCCAAUUUGUCCCGUGGAAAUCGAAAGCCGAUUUUCAUGUCAAUAUUUUUGUUUAAUAAACUGGCCGACUCGAGUCGU
.(((.(((((((((((((((((......)))).)))).))))).....(((...(((((((((((.....))))))))))).)))................)))))))(((....))).. ( -39.10)
>DroSec_CAF1 4624 119 + 1
UGGCGCGGUGCGGUUCAGUGUGGUGCAACGCAGU-GGUGCCGCACAAUUUGUCCCGUGGAAAUCGAAAGCCGAUUUUCAUGUCAAUAUUUUUGUUUAAUAAACUGGCCGACUGGAGUCGU
.(((.((((((((((((.((((......)))).)-)).)))))((((..(((..(((((((((((.....)))))))))))...)))...)))).......)))))))(((....))).. ( -42.70)
>DroSim_CAF1 6075 119 + 1
UGGCGCGGUGCGGUUCAGUGUGGUGCAACGCAGU-GGUGCCGCACAAUUUGUCCCGUGGAAAUCGAAAGCCGAUUUUCAUGUCAAUAUUUUUGUUUAAUAAACUGGCCGACUGGAGUCGU
.(((.((((((((((((.((((......)))).)-)).)))))((((..(((..(((((((((((.....)))))))))))...)))...)))).......)))))))(((....))).. ( -42.70)
>DroYak_CAF1 4444 117 + 1
UGGCGCGGAGCGUUUCAGUGUGGUGCAAC--AGU-GGUGCCGCACAAUUUGUCCCGUGGAAAUCGAAAGCCGAUUUUCAUGUCAAUAUUUUUGUUUAAUAAACUGGACGACUCAAGUCGU
.(((...(((.......((((((..(...--...-.)..))))))...(((((((((((((((((.....))))))))))).(((.....)))...........)))))))))..))).. ( -38.60)
>consensus
UGGCGCGGUGCGGUUCAGUGUGGUGCAACGCAGU_GGUGCCGCACAAUUUGUCCCGUGGAAAUCGAAAGCCGAUUUUCAUGUCAAUAUUUUUGUUUAAUAAACUGGCCGACUCGAGUCGU
((((((((..(((....((((((..(..........)..))))))...)))..))))((((((((.....))))))))..)))).......................((((....)))). (-35.03 = -35.52 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:35 2006