Locus 2596

Sequence ID 3R_DroMel_CAF1
Location 7,021,463 – 7,021,568
Length 105
Max. P 0.555460
window4228

overview

Window 8

Location 7,021,463 – 7,021,568
Length 105
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 83.61
Mean single sequence MFE -28.56
Consensus MFE -19.82
Energy contribution -19.90
Covariance contribution 0.08
Combinations/Pair 1.09
Mean z-score -1.64
Structure conservation index 0.69
SVM decision value 0.04
SVM RNA-class probability 0.555460
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7021463 105 + 27905053
GAAAAUAAAAUGAA-GUGG--C----------UCUUUUUCAGUGCAUUGCAUUUGGAUUUUCAUUUCGAAAUCAAAACUGCCGAAUCCUGUCCCUCGGGCAGGAAACUAGGCUCCGUC
((((((.(((((..-...(--(----------.((.....)).))....)))))..)))))).................(((...((((((((...)))))))).....)))...... ( -27.10)
>DroSec_CAF1 20479 105 + 1
CAAAUUAAAAUGCA-GAUA--C----------UCCUUUUCAGUGCAUUGCAUUUGGGUUUUCAUUUCGAAAUCAAAACUGCCGACUCCUGUCCCUCGGGCAGGAAACUAGGCUCCGUC
.......(((((((-(.((--(----------(.......))))..))))))))(((((((.(((....))).))))).(((...((((((((...)))))))).....))).))... ( -26.90)
>DroSim_CAF1 34764 105 + 1
CAAAAUAAAAUGCA-GAUA--C----------UCCUUUUCAGUGCAUUGCAUUUGGGUUUUCAUUUCGAAAUCAAAACUGCCGACUCCUGUCCCUCGGGCAGGAAACUAGGCUCCGUC
.......(((((((-(.((--(----------(.......))))..))))))))(((((((.(((....))).))))).(((...((((((((...)))))))).....))).))... ( -26.90)
>DroEre_CAF1 19495 118 + 1
CAAAAUGCAUUGAAGGGUAUACUUUUACCACCACCUUUUCAGUGCAUUGCAUUUGGGUUUUCAUUUUGAUAUCACAACUGCCGAGUCCUGUCCCUCGGGCAGGAAACUAGGCUUCGUC
...((((((((((((((((......)))).......))))))))))))....((((((..((.....)).))).)))..(((...((((((((...)))))))).....)))...... ( -34.61)
>DroYak_CAF1 21057 118 + 1
CAUAAUACAUUGAAAGAUACACUUUUGUCGCCACAUUUUCAGUGCAUUUCAUUUGGGUUUUCAUUUUGGAAUCACAACUGCCGAGUCCUGUCCCUCGGGCAGGAAACUAGGCUUCGUC
...........(((.((((......))))(((.........(((.((((((..(((....)))...))))))))).......(..((((((((...))))))))..)..))))))... ( -27.30)
>consensus
CAAAAUAAAAUGAA_GAUA__C__________UCCUUUUCAGUGCAUUGCAUUUGGGUUUUCAUUUCGAAAUCAAAACUGCCGACUCCUGUCCCUCGGGCAGGAAACUAGGCUCCGUC
........................................(((((...)))))..((((((......))))))......(((...((((((((...)))))))).....)))...... (-19.82 = -19.90 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:06 2006