Locus 2012

Sequence ID 3R_DroMel_CAF1
Location 5,709,370 – 5,709,466
Length 96
Max. P 0.815350
window3298

overview

Window 8

Location 5,709,370 – 5,709,466
Length 96
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 96.94
Mean single sequence MFE -22.87
Consensus MFE -21.40
Energy contribution -21.22
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.88
Structure conservation index 0.94
SVM decision value 0.66
SVM RNA-class probability 0.815350
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5709370 96 + 27905053
GCCAAAAACAAAAUGGCAGCCUCCCAAGCUCCGAAAAACUACAACGCAAUAUGGUCGCCAUUUUGUUUUCUCACCGUUAUGUUG----GGCCCUAUGCUC
(((.(((((((((((((.(((......((................)).....))).))))))))))))).....((......))----)))......... ( -22.89)
>DroEre_CAF1 8903 96 + 1
GCCAAAAACAAAAUGGCAGCCUCCCAAGCUCCGAAAAACUACAACGCAAUAUGGUCGCCAUUUUGUUUUCUCACCGUUAUGUUG----GGCCCUAUGCUC
(((.(((((((((((((.(((......((................)).....))).))))))))))))).....((......))----)))......... ( -22.89)
>DroYak_CAF1 13211 96 + 1
GCCAAAAACAAAAUGGCAGCCUCCCAAGCUCCGAAAAACUACAACGCAAUAUGGUCGCCAUUUUGUUUUCUCACCGUUAUGUUG----GGCCCUAUGCUC
(((.(((((((((((((.(((......((................)).....))).))))))))))))).....((......))----)))......... ( -22.89)
>DroAna_CAF1 8389 100 + 1
GCCAAAAACAAAAUGGCAGCUUCCCAAGCUCCGAAUAACUACAACGCAAUAUGGUCGCCAUUUUGUUUUCUCACCGUUAUGUUGCUCUGGCCCUAUGCUC
(((((((((((((((((((((.....))))(((.((..(......)..)).)))..)))))))))))))......((......))..))))......... ( -22.80)
>consensus
GCCAAAAACAAAAUGGCAGCCUCCCAAGCUCCGAAAAACUACAACGCAAUAUGGUCGCCAUUUUGUUUUCUCACCGUUAUGUUG____GGCCCUAUGCUC
(((.(((((((((((((.(((......((................)).....))).)))))))))))))..((......)).......)))......... (-21.40 = -21.22 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:12 2006