Locus 5184

Sequence ID X_DroMel_CAF1
Location 13,530,751 – 13,530,846
Length 95
Max. P 0.757339
window8406

overview

Window 6

Location 13,530,751 – 13,530,846
Length 95
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 84.90
Mean single sequence MFE -41.80
Consensus MFE -32.76
Energy contribution -33.65
Covariance contribution 0.89
Combinations/Pair 1.25
Mean z-score -2.31
Structure conservation index 0.78
SVM decision value 0.49
SVM RNA-class probability 0.757339
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13530751 95 - 22224390
GAGGGGGCAGUGACGUCUGCUCAUCGAAGCCGAGCUCAAGGUUCUCAGCAGACGGCUCAGAGAGGCUGACAUUGCCUCCCUCUCUCGCU---------CCGCCA
((((((((((((.((((((((....((((((........)))).))))))))))..((((.....))))))))))).))))).......---------...... ( -41.00)
>DroSec_CAF1 12866 95 - 1
GAGGGGGCAGUGCCGUCUGCUCAUCGAAGCCGAGCUCAAGGUUCUCAGCAGACGGCUCAGAGAGGCAGACAUUGCCUCCCUCUCUCGCU---------CCGCCA
...(((((.(.((((((((((....((((((........)))).)))))))))))).)(((((((.((.......)).))))))).)))---------)).... ( -44.30)
>DroSim_CAF1 13622 95 - 1
GAGGGGGCAGUGCCGUCUGCUCAUCGAAGCCGAGCUCAAGGUUCUCAGCAGACGGCUCAGAGAGGCGGACAUUGCCUCUCUCUCUCGCU---------CCGUCA
((.(((((.(.((((((((((....((((((........)))).)))))))))))).)(((((((((.....))))))))).....)))---------)).)). ( -50.30)
>DroEre_CAF1 13096 95 - 1
GAGGGGGCAGUGGCGUCUGCUCAUCGAAGCCGAGCUCAAGGUUCUCAGCAGGCGGCUCAGAGAGGCGGACAUUGCCUCCCUCUCUCGCU---------CCGCCA
(((((((((((...(((((((..((..(((((.(((..........)))...)))))..))..))))))))))))).))))).......---------...... ( -41.90)
>DroYak_CAF1 14873 95 - 1
GAGGGGGCAGUGGCGUCUGCUCAUCGAAGCCGAACUCAAGGUUCUCAGCAGGCGGCUCAGAGAGGCGGACAUUGCCUCCCUCUCUCGCU---------CCGCCA
(((((((((((...(((((((..((..((((((((.....))))...(....)))))..))..))))))))))))).))))).......---------...... ( -41.30)
>DroAna_CAF1 17705 101 - 1
GAGCGGACAGCGACGUCGACUCAUCGAAGCUGAGCUCAAGUUUCGUAGCAGGCAGCUAAUGGAAGCUGUGA---CUUCCCUCACACCCUCCUUGGGCUUCUCCC
((((...((((....((((....)))).)))).)))).((((((.((((.....))))...))))))((((---......)))).(((.....)))........ ( -32.00)
>consensus
GAGGGGGCAGUGACGUCUGCUCAUCGAAGCCGAGCUCAAGGUUCUCAGCAGACGGCUCAGAGAGGCGGACAUUGCCUCCCUCUCUCGCU_________CCGCCA
(((((((((((...(((((((..((..(((((.(((..........)))...)))))..))..))))))))))))).)))))...................... (-32.76 = -33.65 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:47 2006