Locus 5952

Sequence ID dm3.chr3L
Location 2,736,668 – 2,736,719
Length 51
Max. P 0.595619
window8182

overview

Window 2

Location 2,736,668 – 2,736,719
Length 51
Sequences 11
Columns 64
Reading direction forward
Mean pairwise identity 89.02
Shannon entropy 0.20477
G+C content 0.43996
Mean single sequence MFE -14.25
Consensus MFE -11.63
Energy contribution -11.90
Covariance contribution 0.27
Combinations/Pair 1.00
Mean z-score -1.50
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.21
SVM RNA-class probability 0.595619
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 2736668 51 + 24543557
--------UUGGCCAUG-----CUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUCUACACA
--------(((((.(((-----...))))))))((((((((.....(....).))))))))... ( -14.00, z-score =  -1.57, R)
>droSim1.chr3L 2292401 51 + 22553184
--------UUGGCCAUG-----CUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUCUACACA
--------(((((.(((-----...))))))))((((((((.....(....).))))))))... ( -14.00, z-score =  -1.57, R)
>droSec1.super_2 2761656 51 + 7591821
--------UUGGCCAUG-----CUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUCUACACA
--------(((((.(((-----...))))))))((((((((.....(....).))))))))... ( -14.00, z-score =  -1.57, R)
>droYak2.chr3L 15001535 51 - 24197627
--------UUGGCCAUG-----CUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUCUACACA
--------(((((.(((-----...))))))))((((((((.....(....).))))))))... ( -14.00, z-score =  -1.57, R)
>droEre2.scaffold_4784 2762809 51 + 25762168
--------UUGGCCAUG-----CUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUCUACACA
--------(((((.(((-----...))))))))((((((((.....(....).))))))))... ( -14.00, z-score =  -1.57, R)
>droAna3.scaffold_13337 13948469 63 - 23293914
GUGGCUAGAGGGCCAUGUUGCGUUGCGUGCCAAGUGGAAAAUAUUUCGCAAGCUCU-CUACACA
(((..(((((((((((((......)))))....((((((....))))))..)))))-)))))). ( -21.70, z-score =  -1.69, R)
>dp4.chrXR_group5 120307 51 + 740492
--------ACGGCCAUG-----CUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUCUACACA
--------..(((.(((-----...))))))..((((((((.....(....).))))))))... ( -12.70, z-score =  -1.03, R)
>droPer1.super_58 113229 51 - 410386
--------ACGGCCAUG-----CUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUCUACACA
--------..(((.(((-----...))))))..((((((((.....(....).))))))))... ( -12.70, z-score =  -1.03, R)
>droWil1.scaffold_180916 1050544 53 + 2700594
--------UUGGCCAUGUUG--CUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUGUACCC-
--------(((((.((((..--..)))))))))((((((....))))))..............- ( -13.00, z-score =  -0.97, R)
>droVir3.scaffold_13049 14136092 50 - 25233164
--------UCGGCCAUG-----UUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUCUACAU-
--------..(((.(((-----...))))))..((((((((.....(....).))))))))..- ( -12.70, z-score =  -1.72, R)
>droGri2.scaffold_15110 8233270 50 + 24565398
--------UUGGCCAUG-----UUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUCUACAU-
--------(((((.(((-----...))))))))((((((((.....(....).))))))))..- ( -14.00, z-score =  -2.14, R)
>consensus
________UUGGCCAUG_____CUGCGUGCCAAGUGGAAAAUAUUUCGCAAGUUUUUCUACACA
..........(((.(((........))))))..((((((((.....(....).))))))))... (-11.63 = -11.90 +   0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:58:21 2011