Locus 1282

Sequence ID 3R_DroMel_CAF1
Location 3,794,706 – 3,794,826
Length 120
Max. P 0.666791
window2096

overview

Window 6

Location 3,794,706 – 3,794,826
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.25
Mean single sequence MFE -38.88
Consensus MFE -30.25
Energy contribution -30.73
Covariance contribution 0.48
Combinations/Pair 1.07
Mean z-score -1.64
Structure conservation index 0.78
SVM decision value 0.28
SVM RNA-class probability 0.666791
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3794706 120 + 27905053
UUUUAGCCCUUUUUAUGGCGGAGUGUCGAAAGAGCUUGGCUGGGGGCAUCUGCAUUUGCAAUCUCAUAAAUCAAUUAGCAAAGAGCGGCGCGGGAAGAGUAUCUCGCGGAUACGCAUCCG
.....((((((.....(((.((((.((....)))))).)))))))))..((((.(((((..................)))))..)))).((((((......))))))((((....)))). ( -40.17)
>DroSec_CAF1 24043 120 + 1
UUUUAGCCCACUUUAUGGCGGAGUGUCGAAAGAGCUUGGCUGCAGGCAUCUGCAUUUGCAAUCUCAUAAAUCAAUUAGCAAAGAGCGGCGCGGGAAGAGUAUCUCGCGGAUACGCAUCCG
.....(((...((((((((.((((.((....)))))).))(((((....)))))..........)))))).......((.....)))))((((((......))))))((((....)))). ( -37.60)
>DroSim_CAF1 28522 120 + 1
UUUUAGCCCACUUUAUGGCGGAGUGUCGAAAGAGCUUGGCUGGAGGCAUCUGCAUUUGCAAUCUCAUAAAUCAAUUAGCAAAGAGCGGCGCGGGAAGAGUAUCUCGCGGAUACGCAUCCG
....((((((((((.....))))))((....))....))))(((.((..((((.(((((..................)))))..))))(((((((......))))))).....)).))). ( -36.67)
>DroEre_CAF1 15212 120 + 1
UUUUAGCCAACUUAAUGGCGGAGUGUCGAAAGAGCUUGGCUGAAGGCAUCUGCAGAUGCAAUCUCAUAAAUCAAUUGACAAAGAGCGGCGCGAGAAGAGUAUCUCGCGGAUACGCAUCCG
.....((((......))))(((.((((((..((..(((...((..(((((....)))))..))...))).))..))))))....(((.(((((((......)))))))....))).))). ( -40.50)
>DroYak_CAF1 26315 110 + 1
UUUU----------AUGGCGGAGUGUCGAAAGAGCUUCGCUGGAGGCAUCUGCAGUUGCAAUCUCAUAAAUCAAUUAGCAAAGAGCGGCGCGGGAAGAGUAUCUCGCGGAUAUGCAUCCG
....----------..((((((((.((....))))))))))(((.((((((((..((((..................))))...))))(((((((......)))))))...)))).))). ( -39.47)
>consensus
UUUUAGCCCACUUUAUGGCGGAGUGUCGAAAGAGCUUGGCUGGAGGCAUCUGCAUUUGCAAUCUCAUAAAUCAAUUAGCAAAGAGCGGCGCGGGAAGAGUAUCUCGCGGAUACGCAUCCG
................(((.((((.((....)))))).)))(((.((..((((..((((..................))))...))))(((((((......))))))).....)).))). (-30.25 = -30.73 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:37 2006