Locus 5335

Sequence ID 3L_DroMel_CAF1
Location 14,733,601 – 14,733,721
Length 120
Max. P 0.531666
window8433

overview

Window 3

Location 14,733,601 – 14,733,721
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.67
Mean single sequence MFE -46.76
Consensus MFE -38.36
Energy contribution -38.24
Covariance contribution -0.12
Combinations/Pair 1.13
Mean z-score -1.34
Structure conservation index 0.82
SVM decision value -0.00
SVM RNA-class probability 0.531666
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14733601 120 + 23771897
GGAGCGCAGCAGUCUGGACUCGAAGUCCCGCUGACAUUCGGGAUCGGAAACACUAUCCCAGCGACAGCUCUGCAGGGUCACGAAGCUCUGGAGCAGCCAGUCAAUGGGCUGGUCAUUGUA
(((((...((.(((.((((.....))))....)))....(((((.(....)...))))).))....))))).((((((......))))))((.(((((........))))).))...... ( -45.20)
>DroSec_CAF1 39218 120 + 1
GGAGCGCAGCAGUCGGGACUCGAAGUUCCGCUGACAUUCGGGAUCGGAAACACUAUCCCAGCGACAGCUCUGCAGGGUCACGAAGCUCUGGAGCAGCCAGUCAAUGGGCUGGUCAUUGUA
....(((.((((.((((((.....))))))))).)....(((((.(....)...))))).)))(((((((..((((((......)))))))))).(((((((....)))))))...))). ( -47.60)
>DroSim_CAF1 40933 120 + 1
GGAGCGCAGCAGUCUGGACUCGAAGUUCCGCUGACAUUCGGGAUCGGAAACACUAUCCCAGCGACAGCUCUGCAGGGUCACGAAGCUCUGGAGCAGCCAGUCAAUGGGCUGGUCAUUGUA
(((((...((.(((.((((.....))))....)))....(((((.(....)...))))).))....))))).((((((......))))))((.(((((........))))).))...... ( -42.30)
>DroEre_CAF1 40015 120 + 1
GGAGCGAAGCAGCCUGGACUCGAAGUCCCGCUGACAGUCCGGAUCGGACACGCUAUCCCAGCGACAGCUCUGCAGGGUCACAAAGCUCUGGAGCAGCCAGUCAAUGGGCUGGUCGCUGUA
((((((..(((((..((((.....)))).)))).).(((((...))))).)))..)))(((((((.(((((.((((((......)))))).)).)))(((((....)))))))))))).. ( -54.90)
>DroYak_CAF1 40550 120 + 1
GGAGCGAAGCAGUCUGGCCUCAAAGUCCUGCUGGCAUUCCGGUUCGGAAACGCUAUCCCAGCGACAGCUCUGCAGGGUCACGAAGCUCUGGAGCAGCCAGUCGAUGGGCUGGUCAUUGUA
(((((((.((......)).))...(((((((.(((.(((((...))))).((((.....))))...)))..)))))).).....))))).((.(((((........))))).))...... ( -43.80)
>consensus
GGAGCGCAGCAGUCUGGACUCGAAGUCCCGCUGACAUUCGGGAUCGGAAACACUAUCCCAGCGACAGCUCUGCAGGGUCACGAAGCUCUGGAGCAGCCAGUCAAUGGGCUGGUCAUUGUA
........((((((((..(((((((((.....))).))))))..)))....((((.((((..(((.(((((.((((((......)))))).)).)))..)))..)))).)))).))))). (-38.36 = -38.24 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:36 2006