Locus 3648

Sequence ID 3L_DroMel_CAF1
Location 10,704,165 – 10,704,285
Length 120
Max. P 0.652334
window5689

overview

Window 9

Location 10,704,165 – 10,704,285
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.82
Mean single sequence MFE -26.64
Consensus MFE -21.72
Energy contribution -22.16
Covariance contribution 0.44
Combinations/Pair 1.06
Mean z-score -1.70
Structure conservation index 0.82
SVM decision value 0.25
SVM RNA-class probability 0.652334
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10704165 120 - 23771897
AUGAAACAUUCCCAGCGAUUCAAAAUGCCGAGCGGUUGACCUCUGCUCUAAAAGAUACACUUUCUUAAAUGGUGUGCAAUGCAGCCAGCUGCAAAAACUUAUUUAGCAUAAAUUAAAUCA
................((((.((.((((.((((((.......))))))...(((.((((((.........))))))...(((((....)))))....))).....))))...)).)))). ( -24.90)
>DroSec_CAF1 38595 119 - 1
AUGAAACAUUCCCAGCGAUUCAAAAUGCCGAGCGGUUGACCUCUGCUCUAAAAGAUACACUUUCUCAAAUGGCGUGCAAUGCAGCCAGCUGGA-AAACUUAUUUAGCAUAAAUUAAAUCA
................((((.((.((((.((((((.......))))))....(((((...((((.((..((((.(((...)))))))..))))-))...))))).))))...)).)))). ( -25.70)
>DroSim_CAF1 40327 119 - 1
AUGAAACAUUCCCAGCGAUUCAAAAUGCCGAGCGGUUGACCUCUGCUCUAAAAAAUACACUUUCUCAAAUGGCGUGCAAUGCAGCCAGCUGGA-AAACUUAUUUAGCAUAAAUUAAAUCA
...........(((((.............((((((.......)))))).....................((((.(((...)))))))))))).-.......................... ( -25.60)
>DroEre_CAF1 41914 119 - 1
AUGAAACAUUCCCAGCGUUUCAAAAUGCCGAGGGGUUGACCUCUGCUCUAAAAGAUACACUUUCUCAAAUGGCGUGCAAUGCAGCCAGCUGGA-AAAUUUAUUUAGCAUAAAUUAAAUCA
.(((.......(((((((.((.....((.((((......)))).)).......)).))...........((((.(((...)))))))))))).-.(((((((.....)))))))...))) ( -28.50)
>DroYak_CAF1 51579 119 - 1
AUGAAACAUUCCCAGCGUUUCAAAAUGCCGAGGGGUUGACCUCUGCUCUAAAAGAUACACUUUCUCAAAUGGCGUGCAAUGCAGCCAGCUGGA-AAAUUUAUUUAGCAUAAAUUAAAUCA
.(((.......(((((((.((.....((.((((......)))).)).......)).))...........((((.(((...)))))))))))).-.(((((((.....)))))))...))) ( -28.50)
>consensus
AUGAAACAUUCCCAGCGAUUCAAAAUGCCGAGCGGUUGACCUCUGCUCUAAAAGAUACACUUUCUCAAAUGGCGUGCAAUGCAGCCAGCUGGA_AAACUUAUUUAGCAUAAAUUAAAUCA
...........(((((.............((((((.......)))))).....................((((.(((...))))))))))))............................ (-21.72 = -22.16 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:11 2006