Locus 3506

Sequence ID 3R_DroMel_CAF1
Location 9,473,138 – 9,473,228
Length 90
Max. P 0.564788
window5630

overview

Window 0

Location 9,473,138 – 9,473,228
Length 90
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 86.12
Mean single sequence MFE -14.58
Consensus MFE -12.09
Energy contribution -11.37
Covariance contribution -0.72
Combinations/Pair 1.41
Mean z-score -1.65
Structure conservation index 0.83
SVM decision value 0.06
SVM RNA-class probability 0.564788
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9473138 90 + 27905053
CGCAGGAAGAUAACAAAGAAAAGUGCUACAAAAAGUGCCGAUUUUUCGGCAAACUUCAACCCAAAAGCAAUACAC-ACUGUGCAUUACAAA
(((((((((...............(((......)))(((((....)))))...))))........(....)....-.)))))......... ( -16.10)
>DroSec_CAF1 102690 89 + 1
CGCAGGAAGAUAACAAAGA-AAGUGCUACAAAAAGUGCCGAUU-UUCGGCAAACUUCAACCCAAAAGCAAUACAAAACUGUGCAUUACAAA
(((((((((..........-....(((......)))((((...-..))))...))))........(....)......)))))......... ( -14.70)
>DroSim_CAF1 92200 89 + 1
CGCAGGAAGAUAACAAAGA-AAGUGCUACAAAAAGUGCCGAUUUUUCGGCAAACUUCAACCCAAAAGCAAUACAC-ACUGUGCAUUACAAA
(((((((((..........-....(((......)))(((((....)))))...))))........(....)....-.)))))......... ( -16.10)
>DroEre_CAF1 110419 90 + 1
CGCAGGAAGAUAACAAAGAAAAGUGCUACGAAAAGUGCCGAUUCUUUGGCAAACUUCAACCCAAAAGCAAUACAU-ACUGUGCAUUACAAA
(((((((((....(((((((..(..((......))..)...))))))).....))))........(....)....-.)))))......... ( -16.90)
>DroYak_CAF1 104656 90 + 1
CGCAGGAAGAUAACAAAGAAAAGUGCUGCAAAAAGUGCCGAAUUUUCGGCAAACUUCAACCCAAAAGCAAUACAC-ACUGUGCAUUACAAA
(((((((((...............(((......)))(((((....)))))...))))........(....)....-.)))))......... ( -16.20)
>DroAna_CAF1 98408 76 + 1
---------AUACCACC-AUAAGUGCAACAAA--GU--UAAAAAUUUGGCGAAUUUCAACCCAUAAGCAAUACAC-ACUGUGCAUUACAAC
---------........-...((((((.((((--..--......))))((................)).......-....))))))..... (  -7.49)
>consensus
CGCAGGAAGAUAACAAAGAAAAGUGCUACAAAAAGUGCCGAUUUUUCGGCAAACUUCAACCCAAAAGCAAUACAC_ACUGUGCAUUACAAA
.....................(((((.(((.....((((((....))))))..(((........)))...........))))))))..... (-12.09 = -11.37 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:46 2006