Locus 3297

Sequence ID X_DroMel_CAF1
Location 8,780,784 – 8,780,884
Length 100
Max. P 0.690466
window5397

overview

Window 7

Location 8,780,784 – 8,780,884
Length 100
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 85.92
Mean single sequence MFE -23.33
Consensus MFE -16.98
Energy contribution -17.23
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.73
SVM decision value 0.33
SVM RNA-class probability 0.690466
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8780784 100 - 22224390
GCACUUUGUCAACUUGGAGUCUUUUAAUUAGAAAAAGUUGCCGCAGGCACCAA---A------CAACCUUGCAACCAUGCCACCUUGCAACCUUACAACCUUGCAAGUU
(((....(.((((((....(((.......)))..)))))).)(((((......---.------....))))).....)))...(((((((..........))))))).. ( -19.10)
>DroSec_CAF1 29230 91 - 1
GCACUUUGUCAACUUGGAGUCUUUUAAUUAGAAAAAGUUGCCGCAGGCAACAG---A-------AACCUUGCA--------ACCUUGCAACCUUUCAGCCUUGCAAGUU
..((((.(.((((((....(((.......)))..)))))).)((((((....(---(-------((..(((((--------....)))))..)))).))).))))))). ( -21.50)
>DroSim_CAF1 27014 91 - 1
GCACUUUGUCAACUUGGAGUCUUUUAAUUAGAAAAAGUUGCCGCAGGCACCAG---C-------AACCUUGCA--------ACCUUGCAACCUUACAGCCUUGCAAGUU
((.((.((.((((((....(((.......)))..)))))).)).)))).....---.-------...((((((--------(..(((........)))..))))))).. ( -19.80)
>DroYak_CAF1 26053 109 - 1
GCACUUUGUCAACUUGGAGUCUUUUAAUUAGAAAAAGUUGCCGCAGGCAACAGCAGCAACUUGCAACCUUGCAACCUUGCCACCUUGCAACCUUGCAACCGUGCAAGUU
((.....(.((((((....(((.......)))..)))))).)((.(....).)).))((((((((...((((((..((((......))))..))))))...)))))))) ( -32.90)
>consensus
GCACUUUGUCAACUUGGAGUCUUUUAAUUAGAAAAAGUUGCCGCAGGCAACAG___A_______AACCUUGCA________ACCUUGCAACCUUACAACCUUGCAAGUU
((.((.((.((((((....(((.......)))..)))))).)).))))...................................(((((((..........))))))).. (-16.98 = -17.23 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:50 2006