Locus 1934

Sequence ID X_DroMel_CAF1
Location 5,307,703 – 5,307,823
Length 120
Max. P 0.906495
window3143

overview

Window 3

Location 5,307,703 – 5,307,823
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -29.08
Consensus MFE -27.18
Energy contribution -26.74
Covariance contribution -0.44
Combinations/Pair 1.10
Mean z-score -1.53
Structure conservation index 0.93
SVM decision value 1.05
SVM RNA-class probability 0.906495
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5307703 120 + 22224390
AAAAUAAGCAAAAACAAAGGCCAAGUUGAAAACGACGAAUUUAUUUGCAACACGCGCCAGUCUGGCCAAGAUCUGUCGCCGCAGAUAAUCCCGCAAAAGGGCAUUUAGUCGACUCGCCAC
..................(((..((((((...........((((((((.....(((.((((((.....))).))).))).)))))))).(((......))).......)))))).))).. ( -30.10)
>DroSec_CAF1 44487 120 + 1
AAAAUAAGCAAAAACAAAGGCCAAGCCGAAAACGACGAAUUUAUUUGCAACACGCGCCAGUCUGGCCAAGAUCUGUCGCCGCAGAUAAUCCCGCAAAAGGGCAUUUAGUCGACUCGCCAC
.......((.........(((...))).....((((....((((((((.....(((.((((((.....))).))).))).)))))))).(((......)))......))))....))... ( -29.80)
>DroSim_CAF1 36005 120 + 1
AAAAUAAGCAAAAACAAAGGCCAAGCCGAAAACGACGAAUUUAUUUGCAACACGCGCCAGUCUGGCCAAGAUCUGUCGCCGCAGAUAAUCCCGCAAAAGGGCAUUUAGUCGACUCGCCAC
.......((.........(((...))).....((((....((((((((.....(((.((((((.....))).))).))).)))))))).(((......)))......))))....))... ( -29.80)
>DroEre_CAF1 47244 120 + 1
AAAAUAAGCAAAAACAAAGGCCAAGUUGAAAACGACGAAUUUAUUUGCAACACGCGCCAGUCUGGCCAAGAUCUGUAGCCGCAGAUAAUCCCGCAAAAGGGCAUUUAGUCGACUCGCCAC
..................(((..((((((...........((((((((.....((..((((((.....))).)))..)).)))))))).(((......))).......)))))).))).. ( -27.90)
>DroYak_CAF1 46964 120 + 1
AAAAUAAGCAAAAACAAAGGCCAAGCCGAAAACGACGAAUUUAUUUGCAACACGCGCCAGUCUGGCCAAGAUCUGUCGCCGUAGAUAAUCCCGCAAAAGGGCAUUUAGUCGACUCGCCAC
.......((.........(((...))).....((((....((((((((.....(((.((((((.....))).))).))).)))))))).(((......)))......))))....))... ( -27.80)
>consensus
AAAAUAAGCAAAAACAAAGGCCAAGCCGAAAACGACGAAUUUAUUUGCAACACGCGCCAGUCUGGCCAAGAUCUGUCGCCGCAGAUAAUCCCGCAAAAGGGCAUUUAGUCGACUCGCCAC
.......((.........(((...))).....((((....((((((((.....(((.((((((.....))).))).))).)))))))).(((......)))......))))....))... (-27.18 = -26.74 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:12 2006