Locus 1945

Sequence ID 3L_DroMel_CAF1
Location 5,399,043 – 5,399,163
Length 120
Max. P 0.978606
window3040

overview

Window 0

Location 5,399,043 – 5,399,163
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -34.87
Consensus MFE -32.35
Energy contribution -33.97
Covariance contribution 1.61
Combinations/Pair 1.03
Mean z-score -3.92
Structure conservation index 0.93
SVM decision value 1.82
SVM RNA-class probability 0.978606
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5399043 120 + 23771897
GAGAUUGACAGGUCGGAAAUCUGAAAUGUAAUCGCUGCCAGACGAAGCAAUUUGCCAAGAAAUGAACUCUAAUUGGGUUCACUUGGAAAGUUAUAAAGGAAAACGGAUAAAGGCGGUGAA
.......(((..((((....))))..)))..((((((((...((((....))))(((((...(((((((.....)))))))))))).........................)))))))). ( -36.50)
>DroSec_CAF1 47941 120 + 1
GAGAUUGACAGGUCGGAAAUCUGAAAUGUAAUCGCUGCCAGACGAAGCAAUUUGUCAAGAAAUGAACUCUAAUUGGGUUCACUUGGAAAGUUAUAAAAGAAAACGGAUAAAGGCGGUGAA
.......(((..((((....))))..)))..((((((((.((((((....))))))......(((((((.....)))))))..............................)))))))). ( -36.40)
>DroYak_CAF1 47887 120 + 1
GAGAUUGACAGGUCGGAAAUCUGAAAUGUAAUCGCUGCCAGACGAAGCAAUUUGCCAAGAAAUGAUCUCUAAUUGGGUUCACUUGGAGAGCUAUAAAAGAAAACGGAUAAAGGCGGUAAA
..(((((.((..((((....))))..)))))))((((((...((((....))))(((((...(((.(((.....))).)))))))).........................))))))... ( -31.70)
>consensus
GAGAUUGACAGGUCGGAAAUCUGAAAUGUAAUCGCUGCCAGACGAAGCAAUUUGCCAAGAAAUGAACUCUAAUUGGGUUCACUUGGAAAGUUAUAAAAGAAAACGGAUAAAGGCGGUGAA
..(((((.((..((((....))))..)))))))((((((...((((....))))(((((...(((((((.....)))))))))))).........................))))))... (-32.35 = -33.97 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:42 2006