Locus 1979

Sequence ID X_DroMel_CAF1
Location 5,412,500 – 5,412,614
Length 114
Max. P 0.667879
window3224

overview

Window 4

Location 5,412,500 – 5,412,614
Length 114
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 94.86
Mean single sequence MFE -33.10
Consensus MFE -31.35
Energy contribution -31.85
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.48
Structure conservation index 0.95
SVM decision value 0.28
SVM RNA-class probability 0.667879
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5412500 114 + 22224390
UUUCCCGUAUCACCACUGCCUUC--AGUUGAAGCCACAAAUUGCUGCGGUUUCUGGCUGCAUUUUCCAUUGUUUCACAAAAUGGCGUGGUUUAGGCCACGAAGAAAAGCUAGGCAU
................((((...--....((((((.((......)).))))))(((((.(.....(((((.........)))))((((((....))))))..)...))))))))). ( -31.10)
>DroSim_CAF1 19305 111 + 1
UUCCCCGUAUCA---CUGGCUUC--AGUUCAAGCCACAAAUUGCUGCGGUUGCUGGCUGCAUUUUCCAUUGUUUCACAAAAUGGCGUGGUUUAGGCCACGAAGAAAAGCGAGGCAU
....(((((.((---.((((((.--.....)))))).....)).))))).((((.(((.(.....(((((.........)))))((((((....))))))..)...)))..)))). ( -31.80)
>DroEre_CAF1 28582 111 + 1
UUCCCCGUAUCA---CUGGCUUC--AGUUGAAGCCACAAAUUGCUGCGGUUUCUGGCUGCAUUUUCCAUUGUUUCACAAAAUGGCGUGGUUUAGGCCACGAAGAAAAGCAAGGCAU
....((......---.(((((((--....)))))))....((((((((((.....))))).....(((((.........)))))((((((....))))))......)))))))... ( -34.20)
>DroYak_CAF1 20747 113 + 1
UUCACCGUAUCA---CUGGCUUCACAGUUGAAGCCACAAAUUGCUGCGGUUUCUGGCUGCAUUUUCCAUUGUUUCACAAAAUGGCGUGGUUUAGGCCACGAAGAAAAGCAAGGCAU
...((((((.((---.((((((((....)))))))).....)).))))))...((.((((.(((((((((.........)))).((((((....))))))..))))))).)).)). ( -35.30)
>consensus
UUCCCCGUAUCA___CUGGCUUC__AGUUGAAGCCACAAAUUGCUGCGGUUUCUGGCUGCAUUUUCCAUUGUUUCACAAAAUGGCGUGGUUUAGGCCACGAAGAAAAGCAAGGCAU
....(((((.((....(((((((......))))))).....)).)))))....((.((((.(((((((((.........)))).((((((....))))))..))))))).)).)). (-31.35 = -31.85 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:24 2006