Locus 5245

Sequence ID 3R_DroMel_CAF1
Location 13,695,481 – 13,695,601
Length 120
Max. P 0.997473
window8563

overview

Window 3

Location 13,695,481 – 13,695,601
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.33
Mean single sequence MFE -35.87
Consensus MFE -34.35
Energy contribution -33.71
Covariance contribution -0.64
Combinations/Pair 1.10
Mean z-score -1.96
Structure conservation index 0.96
SVM decision value 2.87
SVM RNA-class probability 0.997473
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13695481 120 - 27905053
GAGAGUGGGGAGUCAGUGAAAGUGGUAAAGGAGCUCCUGGGAUAAUGAGAGAUUCUAGGAGAUGACAGUAGGGGCUCUGCUUCAGUGUGGCCCCUCCUGCAAGUGAAAACGAAAUCAAGU
..(((..(((.((((..................((((((((((........)))))))))).))))....((((((..((....))..)))))))))..)..((....))....)).... ( -37.91)
>DroSec_CAF1 5311 120 - 1
GAGAGUGGGGAGUCAGUGAAAGUGGUGAAGGAGCUGCUGGGAUAAUGAGAGAUUCUAGGAGAUGACAGUAGGGGCUCUGCUUCAGUGUGGCCCCUCCUGCAAGUGAAAACGAAAUCAAAU
..(((..(((.((((..................((.(((((((........))))))).)).))))....((((((..((....))..)))))))))..)..((....))....)).... ( -33.21)
>DroSim_CAF1 5380 120 - 1
GAGAGCGGGGAGUCAGUGAAAGUGGUGAAGGAGCUGUUGGGAUAAUGAGAGAUUCUAGGAGAUGACAGUAGGGGCUCUGCUUCAGUGUGGCCCCUCCUGCAAGUGAAAACGAAAUCAAAU
..((((((((.((((..................((.(((((((........))))))).)).))))....((((((..((....))..))))))))))))..((....))....)).... ( -33.61)
>DroEre_CAF1 5667 120 - 1
GAGAGCAGGGAGUCAGUGAAAGUGGUCAAGGAGCUGCUGGGAUAAUGAGAGAUUCUAGGAGAUGACAGUAGGGGCUCUGCUUCAGUGUGGCCCCUCCUGCAAGUGAAAACGAAAUCAAAU
..((((((((.((((.(((......))).....((.(((((((........))))))).)).))))....((((((..((....))..))))))))))))..((....))....)).... ( -38.30)
>DroYak_CAF1 6028 120 - 1
GAGAGUAGGGAGUCAGUGAAAGUGGUCAAGGAGCUGCUGGGAUAAUGAGAGAUUCUAGGAGAUGACAGUAGGGGCUCUGCUUCAGUGUGGCCCCUCCUGCAAGUGAAAACGAAAUCAAAU
..((((((((.((((.(((......))).....((.(((((((........))))))).)).))))....((((((..((....))..))))))))))))..((....))....)).... ( -36.30)
>consensus
GAGAGUGGGGAGUCAGUGAAAGUGGUCAAGGAGCUGCUGGGAUAAUGAGAGAUUCUAGGAGAUGACAGUAGGGGCUCUGCUUCAGUGUGGCCCCUCCUGCAAGUGAAAACGAAAUCAAAU
..((((((((.((((..................((.(((((((........))))))).)).))))....((((((..((....))..))))))))))))..((....))....)).... (-34.35 = -33.71 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:07 2006