Locus 5230

Sequence ID 2R_DroMel_CAF1
Location 17,038,805 – 17,038,906
Length 101
Max. P 0.962875
window8354

overview

Window 4

Location 17,038,805 – 17,038,906
Length 101
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 77.93
Mean single sequence MFE -34.88
Consensus MFE -19.33
Energy contribution -21.46
Covariance contribution 2.13
Combinations/Pair 1.17
Mean z-score -2.55
Structure conservation index 0.55
SVM decision value 1.55
SVM RNA-class probability 0.962875
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17038805 101 - 20766785
GUCGCUUUAAUUAAAGCGAAGACAAAGGGUAAACA---CUGAGUGGCAGCCAAGCAGCC----------------AGGCAGCCAGGCUGUGCGACCAGGAAUGGAGUGCUCAACUUGCUC
.(((((((....))))))).......((((((...---.(((((.((((((..((.((.----------------..)).))..))))))((..(((....))).)))))))..)))))) ( -31.60)
>DroEre_CAF1 136137 115 - 1
GUCGCUUUAAUUAAAGCGAAGACAAAGGGUAAACA---CUGAGUGGCAGCCAAGCAGCCAAGCAGCCAAGCAGUUAGGCAGCCAGGCUG--CGGCCAGGAAUGGAGUGAUCAACUGGCUC
.(((((((....)))))))........(((...((---(...)))...)))..((((((..((.(((.........))).))..)))))--)((((((.....((....))..)))))). ( -41.90)
>DroYak_CAF1 145401 97 - 1
GUCGCUUUAAUUAAAGCGAAGACAAAGGGUAAACA---CUGAGUGGCAGCCAAGCAG------------------AAGCUGCCAGGCUG--UGGCCAGGAAUGGAGUGAUCAACUCGCUC
.(((((((....))))))).......((((.....---(((.((.((((((..((((------------------...))))..)))))--).))))).....((((.....)))))))) ( -36.40)
>DroAna_CAF1 151682 94 - 1
GUCGCUUUAAUUAAAGCGAAGACAAAGGGUAAACGUUGCUGAGCGACAG-----AAGCC----------------AUGAAGCCAGGG-----AGCCAGGAAUGGAGUGCCCAAGUUACUC
.(((((((....))))))).......(((((..((((.(((.((..(..-----..((.----------------.....))...).-----.))))).))))...)))))......... ( -29.60)
>consensus
GUCGCUUUAAUUAAAGCGAAGACAAAGGGUAAACA___CUGAGUGGCAGCCAAGCAGCC________________AGGCAGCCAGGCUG__CGGCCAGGAAUGGAGUGAUCAACUUGCUC
.(((((((....))))))).......(((((..((...(((.((.((((((..((.((...................)).))..)))))..).)))))...))...)))))......... (-19.33 = -21.46 +   2.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:40 2006