Locus 9295

Sequence ID dm3.chr3R
Location 5,705,839 – 5,705,935
Length 96
Max. P 0.702948
window12743

overview

Window 3

Location 5,705,839 – 5,705,935
Length 96
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 65.55
Shannon entropy 0.58995
G+C content 0.47747
Mean single sequence MFE -26.86
Consensus MFE -12.55
Energy contribution -15.72
Covariance contribution 3.17
Combinations/Pair 1.09
Mean z-score -1.18
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.46
SVM RNA-class probability 0.702948
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5705839 96 + 27905053
AAUGAGUGGCAGGCCACUUGAGUAAGGACCCCUUGUUUUGGGUUUUCGGU-------AUUUGGAUUUUCGGUUCUGGAAACUCUGGACAUGG----UAUGGUAUUGA
...((((((....))))))........(((((.((((..((((((((((.-------..((((....))))..))))))))))..)))).))----...)))..... ( -29.10, z-score =  -1.37, R)
>droYak2.chr3R 9749455 107 + 28832112
ACAGAGUGCCAGGCCACUUGAGUAAGAACCCCGUGUUUUGGGUUUUCGGUUUUCGGUAUUUGGAUUUUCGGUUCUGGAAACUCUGGACAUGGAUGGCAUGGUAUUGA
....(((((((.(((((((....)))....(((((((..((((((((((...((((...........))))..))))))))))..))))))).)))).))))))).. ( -39.20, z-score =  -2.95, R)
>droSec1.super_0 4909131 87 - 21120651
AAUGAGUGGCAGGCCACUUGAGUAAGGACCCCUUGUUUUGGGUUUUCGGU-------AUUUGGAUUUUCGGUUCUGGAAACUCUGGACAUGG----UA---------
...((((((....))))))........(((...((((..((((((((((.-------..((((....))))..))))))))))..)))).))----).--------- ( -27.40, z-score =  -1.43, R)
>droSim1.chr3R_random 376168 96 + 1307089
AAUGAGUGGCAGGCCACUUGAGUAAGGACCCCUUGUUUUGGGUUUUCGGU-------AUUUGGAUUUUCGGUUCUGGAAACUCUGGACACGG----UAUGGUAUUGA
...((((((....))))))........(((((.((((..((((((((((.-------..((((....))))..))))))))))..)))).))----...)))..... ( -29.10, z-score =  -1.21, R)
>droWil1.scaffold_181130 280157 74 - 16660200
ACUGUCUGGCAGGUCACUUGAACUCCGAUACCCU-UACUACUGCCCCGGUCCCUAUCUCUUGCCCAUUUGCUCGC--------------------------------
.......((((((...........(((.......-...........))).........))))))...........-------------------------------- (  -9.52, z-score =   1.04, R)
>consensus
AAUGAGUGGCAGGCCACUUGAGUAAGGACCCCUUGUUUUGGGUUUUCGGU_______AUUUGGAUUUUCGGUUCUGGAAACUCUGGACAUGG____UAUGGUAUUGA
...((((((....))))))...........((.((((..((((((((((........................))))))))))..)))).))............... (-12.55 = -15.72 +   3.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:01:38 2011