Locus 4356

Sequence ID 3R_DroMel_CAF1
Location 11,475,918 – 11,476,018
Length 100
Max. P 0.616246
window7123

overview

Window 3

Location 11,475,918 – 11,476,018
Length 100
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 90.11
Mean single sequence MFE -25.80
Consensus MFE -19.98
Energy contribution -20.02
Covariance contribution 0.04
Combinations/Pair 1.13
Mean z-score -1.55
Structure conservation index 0.77
SVM decision value 0.17
SVM RNA-class probability 0.616246
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11475918 100 + 27905053
CCUCAAAUGGGGAAACGCUCCCAUCAAAAGUUACGAUGGGGGGAAAGCGUUCAAAUCCCAAGUUGCAGUUCCCC-CCUUCAAGUACUCCUUCCCUAUUACU
.....(((((((((..(((.........)))...((.((((((((.(((..............)))..))))))-)).)).........)))))))))... ( -29.34)
>DroSec_CAF1 10100 100 + 1
CCCCAAAGGGGGAAACGCUCCCUUCAAAAGUUAGGAUGGG-GGAAAGCGUUCAAAUCCCAAGUUGCAGUUCCCCUCCUUCAAGUACUCCUUCCCUAUCACU
.....(((((((.....))))))).....(..((((.(((-(((..(((..............)))..)))))))))).)..................... ( -25.74)
>DroSim_CAF1 10325 101 + 1
CCCCAAGUGGGGAAACGCUCCCUUCAAAAGUUACGAUGGGGGGAAAGCGUUCAAAUCCCAAGUUGCAGUUCCCCUCCUUCAAGUACUCCUUCCCUAUCACU
......((((((((..(((.........)))...((.((((((((.(((..............)))..)))))).)).)).........)))))))).... ( -24.34)
>DroEre_CAF1 12428 96 + 1
CCCCAAAUGGGGAGACGCUCCCUUCAAAAGUUGCGAAGGG-GGGAAGCGUUCAAAUCCCAAGCUGCAGUUCC----CUUCAAGUACUCAUUCCCUAUCACU
......((((((((.....((((((.........))))))-((((((((((.........))).))..))))----)............)))))))).... ( -24.90)
>DroYak_CAF1 7560 96 + 1
CCCCCAAUGGGGAGACGCUCCCUUCAAAAGUUGUGAAGGG-GCAAAGCGUUCAAAUCCCAAGCUGCAGUUCC----CUUCAAGUACUCAUUCCCUAUCACU
......((((((((((((((((((((.......)))))))-....))))))..........(((..((....----))...)))......))))))).... ( -24.70)
>consensus
CCCCAAAUGGGGAAACGCUCCCUUCAAAAGUUACGAUGGG_GGAAAGCGUUCAAAUCCCAAGUUGCAGUUCCCC_CCUUCAAGUACUCCUUCCCUAUCACU
......(((((((((((((((((((.........)))))).....))))))............((.((........)).)).........))))))).... (-19.98 = -20.02 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:09 2006