Locus 4308

Sequence ID 3R_DroMel_CAF1
Location 11,425,474 – 11,425,589
Length 115
Max. P 0.938273
window7023

overview

Window 3

Location 11,425,474 – 11,425,589
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -24.48
Consensus MFE -20.62
Energy contribution -20.76
Covariance contribution 0.14
Combinations/Pair 1.03
Mean z-score -1.75
Structure conservation index 0.84
SVM decision value 1.29
SVM RNA-class probability 0.938273
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11425474 115 + 27905053
CGCUUUUUGCAUU-----UCGGCAGUCUGGCUGUUAACUUUUCAUUUGGGAAAAUGGACCACAAAAUUUGUACUACAAGUUGUCCCAACUUGAGCAUAUUUUGUUUUAUUUCCUUCUUAC
.(((..((((...-----...))))...)))................((((((.((((..(((((((.(((....(((((((...))))))).))).)))))))))))))))))...... ( -24.30)
>DroSec_CAF1 173019 120 + 1
CGCUUUUCGCAUUUCGUUUCGGCCGUCUGGCUGUUAACUUUUCAUUUGGGAAAAUGGACCACAAAAUUUGUACUACAAGUUGUCCCAACUUGAGCAUAUUUUGUUUUAUUUCCUUCUUAC
.((.....)).....(((.(((((....)))))..))).........((((((.((((..(((((((.(((....(((((((...))))))).))).)))))))))))))))))...... ( -27.00)
>DroSim_CAF1 167232 120 + 1
CGCUUUCCGCAUUUCGUUUCGGCCGUCUGGCUGUUAACUUUUCAUUUGGAAAAAUGGACCACAAAAUUUGUACUACAAGUUGUCCCAACUUGAGCAUAUUUUGUUUUAUUUCCUUCUUAC
.((.....)).....(((.(((((....)))))..)))..(((((((....)))))))..(((((((.(((....(((((((...))))))).))).)))))))................ ( -26.50)
>DroEre_CAF1 162621 120 + 1
CGCAUUUUGCUUUUCGCUUCGGCAGUCUGGCUGUUAACUUUUCAUUUCGUAAAAUGGACCACAAAAUUUGUACUACAAGUUGUCCCAACUUGAGCAUGUUUUGUUUUAUUUCUUUCGUAC
..((((((((.....((....))((.....))................))))))))....(((((((.(((....(((((((...))))))).))).)))))))................ ( -23.40)
>DroYak_CAF1 165272 120 + 1
CGCAUUUCGCUUUUCGCUUCGGCAGUCUGGCUGUUAACUUUUCAUUUCGUAAAAUGGACCACAAAAUUUGUACUACAAGUUGUCCCAACUUGAGCAUAUUUUGUUUUAUUUCUUUCUUAC
........(((...(((....)).)...))).........(((((((....)))))))..(((((((.(((....(((((((...))))))).))).)))))))................ ( -21.20)
>consensus
CGCUUUUCGCAUUUCGCUUCGGCAGUCUGGCUGUUAACUUUUCAUUUGGGAAAAUGGACCACAAAAUUUGUACUACAAGUUGUCCCAACUUGAGCAUAUUUUGUUUUAUUUCCUUCUUAC
.((.....)).........((((......)))).......(((((((....)))))))..(((((((.(((....(((((((...))))))).))).)))))))................ (-20.62 = -20.76 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:32 2006