Locus 10010

Sequence ID dm3.chr3R
Location 10,518,167 – 10,518,241
Length 74
Max. P 0.577299
window13758

overview

Window 8

Location 10,518,167 – 10,518,241
Length 74
Sequences 5
Columns 74
Reading direction forward
Mean pairwise identity 68.80
Shannon entropy 0.55034
G+C content 0.35801
Mean single sequence MFE -10.60
Consensus MFE -6.68
Energy contribution -6.52
Covariance contribution -0.16
Combinations/Pair 1.33
Mean z-score -0.59
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.17
SVM RNA-class probability 0.577299
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10518167 74 + 27905053
UGUUUAACUUUAUUUACGAUUUUAAAAAGAAGAGCUCCGAUGAAUUUUCCCCAGUGCAUAUGCAAUGCAUUUCA
.................((.........(((((..((....)).)))))...(((((((.....))))))))). (  -7.30, z-score =   0.49, R)
>droEre2.scaffold_4770 10052663 68 + 17746568
------UUUUUAUUUGUGAUUUCCCAUAUAAAAGCUGCGAUGAAUCUUGCUCAGUGUAAGUGCACUGCACUUCA
------(((((((.((.(....).)).))))))).((((.((...(((((.....)))))..)).))))..... ( -12.10, z-score =  -0.42, R)
>droYak2.chr3R 12917581 62 - 28832112
-----------ACAUAUAAGCAUGCAAAUAUAUA-UCCCAUGUAUUUCGCUCAGUGUAAGUGCACUGCAUUUCA
-----------........((..((((((((((.-....)))))))).))..(((((....)))))))...... ( -12.00, z-score =  -1.24, R)
>droSec1.super_0 9705724 74 - 21120651
CAUUUAACUUUCUUUAUGAUUUCCAAACCAAGAGCUGCGAUGAAUUUUCCCCAGUGCAACUGCAUUGCAUUUCA
...............................(((.(((((((.........(((.....)))))))))).))). ( -10.30, z-score =  -0.54, R)
>droSim1.chr3R 16572758 74 - 27517382
UGCUUAACUUUCUUUAUGAUUUUCAAACUAAGAACUGCGAUGAAUUUUCCCCAGUGCAACUGCACUGCAUUUCA
...............................(((.(((((.......))...(((((....)))))))).))). ( -11.30, z-score =  -1.23, R)
>consensus
___UUAACUUUAUUUAUGAUUUUCAAAAUAAGAGCUGCGAUGAAUUUUCCCCAGUGCAACUGCACUGCAUUUCA
...................................................((((((....))))))....... ( -6.68 =  -6.52 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:15:40 2011