Locus 4779

Sequence ID X_DroMel_CAF1
Location 12,420,407 – 12,420,500
Length 93
Max. P 0.650209
window7822

overview

Window 2

Location 12,420,407 – 12,420,500
Length 93
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 67.85
Mean single sequence MFE -39.23
Consensus MFE -13.37
Energy contribution -16.04
Covariance contribution 2.67
Combinations/Pair 1.35
Mean z-score -1.85
Structure conservation index 0.34
SVM decision value 0.24
SVM RNA-class probability 0.650209
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12420407 93 + 22224390
UUGCACAUUGGCAGGCGAUGAUUGCUGCUCGUUCGCUGCUGUUGGGCCGAC---------------GGAAGUGGCAAAGUUAGCUUGUGCUUCUUCGGCAGCCAGUCU
......((((((.((((((((.......))).)))))........(((((.---------------(((((((((.......)))...))))))))))).)))))).. ( -31.50)
>DroVir_CAF1 8519 78 + 1
G-GCGCCUGUACAGGACGUCGCUGCUGCGUGC-------U----G-GCG-----------------GCCAACGGCAGCGUCAGCUUGUGCUUCUUGGGCAGGCAAUCG
.-..(((((..(((((.(.(((.((((.((((-------(----(-.((-----------------.....)).))))))))))..)))).)))))..)))))..... ( -37.50)
>DroSec_CAF1 14441 93 + 1
UUGCCCAAUGGCUGGCGAAGAUUGCUGCUCGUUCGCUGCUGUUGGACAGAC---------------GAAAGUGGCAGCGUUAGCUUGUGCUUCUUCGGCAGCCAGUCU
........((((((.((((((..((((((..((((((((.....).))).)---------------)))...))))))...(((....))))))))).)))))).... ( -40.80)
>DroEre_CAF1 14745 93 + 1
UUGCUCGAGGGCAGGCGAUGAUUGCUGCUCGUUCGCUGCUGUUGGAGCGGC---------------GGAAGUGGCAGCGUUAGCUUGUGCUUCUUCGGCAGCCAGUCA
((((.(((((((((((((((.((((..((..(((((((((.....))))))---------------)))))..)))))))).))))))....)))))))))....... ( -41.60)
>DroYak_CAF1 14398 93 + 1
UUGCUCGAUGGCAGGCGAUGAUUGCUGCUCGUUCGCUGCUGCUGGAGCGGC---------------GGAAGUGGCAGCGUUAGCUUGUGUUUCUUUGGCAGCCAGUCU
(((((.((..((((((((((.((((..((..(((((((((.....))))))---------------)))))..)))))))).))))))...))...)))))....... ( -36.80)
>DroPer_CAF1 18210 102 + 1
CUGCCCAUAGGCAGGCGCUGGCUGCCGUUGGACCGUU------GGGCCAGCAGGGGGACCAUGGGGACCAGGGGGAGCGUCAGUUUGUGUUUCUUGGGCAGGCAAUCC
(((((((..((.((((((..((((.((((...((.((------((.((..((((....)).)).)).)))).)).)))).))))..)))))))))))))))....... ( -47.20)
>consensus
UUGCCCAAUGGCAGGCGAUGAUUGCUGCUCGUUCGCUGCUGUUGGACCGGC_______________GGAAGUGGCAGCGUUAGCUUGUGCUUCUUCGGCAGCCAGUCU
(((((....))))).....((((((((((....((((((..((..........................))..))))))..(((....))).....))))).))))). (-13.37 = -16.04 +   2.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:56 2006