Locus 1286

Sequence ID 2R_DroMel_CAF1
Location 5,026,806 – 5,026,905
Length 99
Max. P 0.888340
window2225

overview

Window 5

Location 5,026,806 – 5,026,905
Length 99
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 91.32
Mean single sequence MFE -30.80
Consensus MFE -24.55
Energy contribution -24.51
Covariance contribution -0.04
Combinations/Pair 1.14
Mean z-score -1.86
Structure conservation index 0.80
SVM decision value 0.95
SVM RNA-class probability 0.888340
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5026806 99 + 20766785
GAACCAGCCCUGAGUCCUAUGCAUACGCAUAAAUAAUAAUGGGCAUGGAGCACGGAAGAUAUGGGGAUUACCAUGGCGCUACCAGGGAAGGGAGGGGAG
...((..((((...((((((((....)))))..............((((((.(....).(((((......)))))..))).)))))).))))..))... ( -32.20)
>DroSec_CAF1 6865 94 + 1
GAACCAGCCCUGGGUCCUAUGCAUACGCAUAAAUAAUAAUGGGCAUGGAGCACGGAAGACGUGGGGGUUACCAUGGCGCUACGAG-----GGAGGGGAG
...((..((((.((((((((((....))))).........)))).(((.((.(....).(((((......))))))).)))).))-----))..))... ( -32.40)
>DroSim_CAF1 6877 94 + 1
GAACCAGCCCUGGGUCCUAUGCAUACGCAUAAAUAAUAAUGGGCAUGGAGCACGGAAGACAUGGGGGUUACCAUGGCGCUACGAG-----GGAGGGGAG
...((..((((.((((((((((....))))).........)))).(((.((.(....).(((((......))))))).)))).))-----))..))... ( -32.80)
>DroEre_CAF1 6819 88 + 1
GAACCAGCCCUGUGUCCUAUGCAUACGCAUAAAUAAUAAUGGGCAUGG-GCACGGAAGACUUG-GGGUUACCAUGGCGCCACGA---------GGGGAG
...((.((((.(((((((((((....))))).........))))))))-)).(....).((((-(((((.....))).)).)))---------)))... ( -28.60)
>DroYak_CAF1 6966 90 + 1
GAACCAGCCCUGUGUCCUAUGCAUACGCAUAAAUAAUAAUGGGCAUGGAGCACGGAAGACAUGGGGGUUACCAUGGCGCUACGA---------GGGGAG
.......(((((((((((((((....))))).........))))))..(((.(....).(((((......)))))..)))...)---------)))... ( -28.00)
>consensus
GAACCAGCCCUGGGUCCUAUGCAUACGCAUAAAUAAUAAUGGGCAUGGAGCACGGAAGACAUGGGGGUUACCAUGGCGCUACGAG_____GGAGGGGAG
...((.((((.......(((((....))))).........)))).(((.((.(....).(((((......))))))).)))............)).... (-24.55 = -24.51 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:57 2006