Locus 5233

Sequence ID 3R_DroMel_CAF1
Location 13,683,272 – 13,683,362
Length 90
Max. P 0.815947
window8539

overview

Window 9

Location 13,683,272 – 13,683,362
Length 90
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 82.42
Mean single sequence MFE -26.80
Consensus MFE -18.36
Energy contribution -19.25
Covariance contribution 0.89
Combinations/Pair 1.05
Mean z-score -2.47
Structure conservation index 0.69
SVM decision value 0.66
SVM RNA-class probability 0.815947
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13683272 90 + 27905053
UGAAAUUUUCAAUUUCCGCCCAAGAGGGAAAAGCGAAAGCGAGGUUGAAUCAAUAAGCAUUCAUUGCCAAGUCCUUGGCUCU---------------------------GCUUAGUU
.......(((((((((..(((....)))....((....)))))))))))....((((((......(((((....)))))..)---------------------------)))))... ( -28.10)
>DroSec_CAF1 10509 90 + 1
UGAAAUUUUCAAUUUCCGCCCAAGAGGGAAAAGCGAAAGCGAGGUUGAAUCAAUAAGCAUUCAUUGCCAAGUCCUUGGCUCU---------------------------GCUUAUUU
.......(((((((((..(((....)))....((....)))))))))))..((((((((......(((((....)))))..)---------------------------))))))). ( -29.40)
>DroSim_CAF1 10593 90 + 1
UGAAAUUUUCAAUUUCCGCCCAAGAGGGAAAAGCGAAAGCGAGGUUGAAUCAAUAAGCAUUCAUUGCCAAGUCCUUGGCUCU---------------------------GCUUAGUU
.......(((((((((..(((....)))....((....)))))))))))....((((((......(((((....)))))..)---------------------------)))))... ( -28.10)
>DroEre_CAF1 5146 90 + 1
UGAAAUUUUCAAUUUCCGCCCAAGAGGGAAAAGCGAAAGCGAGGCUGAAUCAAUAAGCAUUCAUUGCCAAGUCCUUGGCUCC---------------------------GCUUAGUU
.......((((.((((..(((....)))....((....)))))).))))....(((((.......(((((....)))))...---------------------------)))))... ( -22.50)
>DroYak_CAF1 5326 85 + 1
UGAAAUUUUCAAUUUCCGCCCAAGAGGGAAAAGCGAAAGCGAGGUUGAAUCAAAAAGCAUU-----CCAAGCCCUUGGCUCC---------------------------GCUUAGUU
.......(((((((((..(((....)))....((....))))))))))).....((((...-----((((....))))....---------------------------)))).... ( -22.80)
>DroAna_CAF1 9764 117 + 1
GGAAAUAUUCAAUUUCCGCUCUUGAGCCAAAAGCGAAAGCGAGGCCGAAUCUAUAAGCAUUCAUUGCCAAGUCCUCGGCUUCCUUUCCGCCCACCUUUAUCCCCCUGUCGUGUAAUU
((((((.....))))))(((....))).....(((((((.((((((((..((....(((.....)))..))...)))))))))))).)))........................... ( -29.90)
>consensus
UGAAAUUUUCAAUUUCCGCCCAAGAGGGAAAAGCGAAAGCGAGGUUGAAUCAAUAAGCAUUCAUUGCCAAGUCCUUGGCUCC___________________________GCUUAGUU
(((....(((((((((..(((....)))....((....)))))))))))))).............(((((....)))))...................................... (-18.36 = -19.25 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:43 2006