Locus 4576

Sequence ID dm3.chr2R
Location 14,194,578 – 14,194,685
Length 107
Max. P 0.996592
window6273

overview

Window 3

Location 14,194,578 – 14,194,685
Length 107
Sequences 10
Columns 119
Reading direction forward
Mean pairwise identity 88.54
Shannon entropy 0.23130
G+C content 0.39119
Mean single sequence MFE -28.76
Consensus MFE -23.53
Energy contribution -23.66
Covariance contribution 0.13
Combinations/Pair 1.07
Mean z-score -3.26
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.95
SVM RNA-class probability 0.996592
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14194578 107 + 21146708
------GUUGUUGUUGCCUCUUCU------GCGCCAGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
------......(((((.((...(------(.((...((((......)))).))))....(((......))).(((((((((((((.....))))))))))))).)))))))....... ( -28.70, z-score =  -2.85, R)
>droSim1.chr2R_random 2587011 107 + 2996586
------GUUGUUGUUGCCUCUUCU------GCGCCAGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
------......(((((.((...(------(.((...((((......)))).))))....(((......))).(((((((((((((.....))))))))))))).)))))))....... ( -28.70, z-score =  -2.85, R)
>droSec1.super_1 11684214 107 + 14215200
------GUUGUUGUUGCCUCUUCU------GCGCCAGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
------......(((((.((...(------(.((...((((......)))).))))....(((......))).(((((((((((((.....))))))))))))).)))))))....... ( -28.70, z-score =  -2.85, R)
>droYak2.chr2R 6152280 107 - 21139217
------GUUGUUGUUGCCUCUUCU------GCGCCAGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
------......(((((.((...(------(.((...((((......)))).))))....(((......))).(((((((((((((.....))))))))))))).)))))))....... ( -28.70, z-score =  -2.85, R)
>droEre2.scaffold_4845 8415392 107 + 22589142
------GUUGUUGUUGCCUCUUCU------GCGCCAGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
------......(((((.((...(------(.((...((((......)))).))))....(((......))).(((((((((((((.....))))))))))))).)))))))....... ( -28.70, z-score =  -2.85, R)
>droAna3.scaffold_13266 15553761 107 - 19884421
------GUUGUUGUUGCCUCUUCU------GCGCCAGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
------......(((((.((...(------(.((...((((......)))).))))....(((......))).(((((((((((((.....))))))))))))).)))))))....... ( -28.70, z-score =  -2.85, R)
>dp4.chr3 11470511 97 + 19779522
----------------CCUCUCCU------GCGCCAGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
----------------......((------((((...((((......)))).))......(((......))).(((((((((((((.....)))))))))))))...))))........ ( -26.20, z-score =  -3.79, R)
>droVir3.scaffold_12875 526474 115 - 20611582
UGUUCAACUCCCGCUGCCUCUCGC----AUUCGCCCGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
............(((((.((....----....((...((((......)))).))......(((......))).(((((((((((((.....))))))))))))).)))))))....... ( -30.70, z-score =  -3.89, R)
>droMoj3.scaffold_6496 6097085 119 + 26866924
GUUUCCACUCCCUCUGCUUUGCUCUGUUAUUCGCCCGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
...............(((..(((((((((...((...((((......)))).))....)))))..........(((((((((((((.....))))))))))))).)))))))....... ( -29.00, z-score =  -3.77, R)
>droGri2.scaffold_15245 11450411 115 + 18325388
UUUUGCACUCCCUCUCCCUCGCUG----AUUCGCCCGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
....................((((----.((((..........(((.((((.((......)).)))).)))..(((((((((((((.....)))))))))))))))))))))....... ( -29.50, z-score =  -4.01, R)
>consensus
______GUUGUUGUUGCCUCUUCU______GCGCCAGUCAAUUCAAUUUGAAGCCAUUUAGCAUCAAUUUGCAGUAAUUUGACGUAUAAAUUAUGUCAAAUUGCCGAGCAGCUUGUCAU
.............((((.((............((...((((......)))).))......(((......))).(((((((((((((.....))))))))))))).))))))........ (-23.53 = -23.66 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:31:50 2011