Locus 5442

Sequence ID 2R_DroMel_CAF1
Location 17,491,684 – 17,491,791
Length 107
Max. P 0.512074
window8686

overview

Window 6

Location 17,491,684 – 17,491,791
Length 107
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.92
Mean single sequence MFE -30.64
Consensus MFE -26.93
Energy contribution -27.74
Covariance contribution 0.81
Combinations/Pair 1.03
Mean z-score -1.37
Structure conservation index 0.88
SVM decision value -0.04
SVM RNA-class probability 0.512074
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17491684 107 + 20766785
CAGGGCUUAGGACUUGGGCCGCAAAUCAGGUCAGGCCACAAGCACAAAUCUCUUGCUCAAUC-------------AUUCCACGAUAAUCAACUUUGAUACACGUUUGCAGGAGAGCCUUC
.(((((...(..((((((((.............)))).))))..)...((((((((...(((-------------.......))).((((....))))........))))))))))))). ( -31.52)
>DroSec_CAF1 19483 120 + 1
CAGGGCUUAUGAUUUGGGCCGCAAAUCAGGUCAGGCCACAAGCACAAAUCUCUUGCUCAAUCCAUGCUGAAAAAUAUUCCACGAUAAUCAACUUUGAUACACGUUUGCAGGAGAGCCUUC
.(((((((..((((((((((........))))..((.....)).))))))(((((((((........)))..........(((...((((....))))...)))..))))))))))))). ( -30.00)
>DroSim_CAF1 32383 120 + 1
CAGGGCUUAGGAUUUGGGCCGCAAAUCAGGUCAGGCCACAAGCACAAAUCUCUUGCUCAAUCCAUGCUGAAAAAUAUUCCACGAUAAUCAACUUUGAUACACGUUUGCAGGAGAGCCUUC
.(((((...(..((((((((.............)))).))))..)...(((((((((((........)))..........(((...((((....))))...)))..))))))))))))). ( -30.82)
>DroYak_CAF1 28533 120 + 1
CAGGGCUUAGGAUUUGGGCCGCAAAUCAGGUCAGGCCACAAGCACAAAUCUCUAGCUCAAUCCAUGCUGAAAAAUAUUCCACGAUAAUCAACUUUGAUACACGUUCGCAGGAGAGCCUUC
..(((((..(((((((((((........))))..((.....)).)))))))..)))))..(((.(((.(((.....))).(((...((((....))))...)))..))))))........ ( -30.20)
>consensus
CAGGGCUUAGGAUUUGGGCCGCAAAUCAGGUCAGGCCACAAGCACAAAUCUCUUGCUCAAUCCAUGCUGAAAAAUAUUCCACGAUAAUCAACUUUGAUACACGUUUGCAGGAGAGCCUUC
.(((((....(.((((((((.............)))).))))).....(((((((((((........)))..........(((...((((....))))...)))..))))))))))))). (-26.93 = -27.74 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:01 2006