Locus 8516

Sequence ID 3L_DroMel_CAF1
Location 22,305,797 – 22,305,900
Length 103
Max. P 0.554476
window13944

overview

Window 4

Location 22,305,797 – 22,305,900
Length 103
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.90
Mean single sequence MFE -39.98
Consensus MFE -28.30
Energy contribution -29.68
Covariance contribution 1.38
Combinations/Pair 1.19
Mean z-score -1.49
Structure conservation index 0.71
SVM decision value 0.04
SVM RNA-class probability 0.554476
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22305797 103 + 23771897
------------CGGAUUGGGGAGAGCCCCAAGUGGAUCCG-GUCCCU-UUCUACACGAGUAUUACAUAUUUCGCAGAGGGUGUGGU---GUGUGUGCUGCUCGCCUGUUUGGUUAGGUU
------------((((((((((....))))).....)))))-...(((-..(((((((((((.(((((((.(((((.....))))).---))))))).))))))..)))..))..))).. ( -36.70)
>DroSec_CAF1 64373 117 + 1
GGCUGGGGAUUGCGGAUUGGGGAGAGCCCCAAGUGGAUCUG-GUCCCU-UUCUACACGGGUAUCACAUACUUCGCAGAGGGUGUGGU-GUGUGUGUGCUGUUUGCCUGUUUGGUUAGGUU
(((..((..(..(...((((((....)))))))..).))..-)))(((-..(((.(((((((.(((((((.(((((.....))))).-))))))).......))))))).)))..))).. ( -44.10)
>DroSim_CAF1 46413 118 + 1
GGCUGGGGAUUGCGGAUUGGGGAGAGCCCCAAGUGGAUCUG-GUCCCU-UUCUACACGGGUAUCACAUACUUCGCAGAGGGUGUGGUGGUGUGUGUGCUGUUUGCCUGUUUGGUUAGGUU
(((..((..(..(...((((((....)))))))..).))..-)))(((-..(((.(((((((.(((((((((((((.....))))).)))))))).......))))))).)))..))).. ( -44.00)
>DroEre_CAF1 62824 110 + 1
UGCUGGGGAUUGCGGAUUGGGGAGAGCCCCAAGUGGAUCUGGGUCCCUUUUCUACACGAGCAUUACAUAUUUCGCAGAGGGUG----------UGUGCUGUUUGCCUGUUUGGUUAGGUU
....(((((((.((((((((((....))))).....))))))))))))........((((((.(((((((((......)))))----------)))).))))))((((......)))).. ( -35.10)
>consensus
GGCUGGGGAUUGCGGAUUGGGGAGAGCCCCAAGUGGAUCUG_GUCCCU_UUCUACACGAGUAUCACAUACUUCGCAGAGGGUGUGGU___GUGUGUGCUGUUUGCCUGUUUGGUUAGGUU
....(((((...((((((((((....))))).....)))))..)))))........((((((.(((((((.(((((.....)))))....))))))).))))))((((......)))).. (-28.30 = -29.68 +   1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:43 2006