Locus 1800

Sequence ID dm3.chr2L
Location 13,973,822 – 13,973,924
Length 102
Max. P 0.999027
window2477 window2478

overview

Window 7

Location 13,973,822 – 13,973,924
Length 102
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 91.28
Shannon entropy 0.11704
G+C content 0.36914
Mean single sequence MFE -37.23
Consensus MFE -27.37
Energy contribution -27.70
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -6.46
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.60
SVM RNA-class probability 0.999027
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13973822 102 + 23011544
UAUGGGAAUAGAUACAUAUAUGACAAGUACUGAAAAAGGAAACGCUGAUACGACUGGUUGGUAUCAGCGUUUUCUUUUCCAGUACUCGUAAAGUAUUCGUAU
...........((((..((((.((.(((((((.((((((((((((((((((.(.....).)))))))))))))))))).))))))).))...))))..)))) ( -41.10, z-score =  -7.20, R)
>droSim1.chr2L 13729867 94 + 22036055
UAUGGGAAUAGGUA----UAUGACA----CUGAAAAAGGAAACGCUGAUACGACUGGAUGGUAUCAGCAUUUUCUUUUCCAGUAGUCGUAAAGUAUUCGUAA
..((.(((((..(.----(((((((----(((.(((((((((.((((((((.(.....).)))))))).))))))))).)))).)))))))..))))).)). ( -35.30, z-score =  -6.09, R)
>droSec1.super_3 230568 94 + 7220098
UAUGGGAAUAGGUA----UAUGACA----CUGAAAAAGGAAACGCUGAUACGACUGGAUGGUAUCAGCAUUUUCUUUUCCAGUAGUCGUAAAGUAUUCGUAA
..((.(((((..(.----(((((((----(((.(((((((((.((((((((.(.....).)))))))).))))))))).)))).)))))))..))))).)). ( -35.30, z-score =  -6.09, R)
>consensus
UAUGGGAAUAGGUA____UAUGACA____CUGAAAAAGGAAACGCUGAUACGACUGGAUGGUAUCAGCAUUUUCUUUUCCAGUAGUCGUAAAGUAUUCGUAA
..((.(((((........((((((.....(((.(((((((((.((((((((.(.....).)))))))).))))))))).)))..))))))...))))).)). (-27.37 = -27.70 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 13,973,822 – 13,973,924
Length 102
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 91.28
Shannon entropy 0.11704
G+C content 0.36914
Mean single sequence MFE -35.67
Consensus MFE -27.45
Energy contribution -27.57
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -8.43
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.50
SVM RNA-class probability 0.991873
Prediction RNA
WARNING Mean z-score out of range.

Download alignment: ClustalW | MAF

>dm3.chr2L 13973822 102 - 23011544
AUACGAAUACUUUACGAGUACUGGAAAAGAAAACGCUGAUACCAACCAGUCGUAUCAGCGUUUCCUUUUUCAGUACUUGUCAUAUAUGUAUCUAUUCCCAUA
(((((.(((....((((((((((((((((.((((((((((((.........)))))))))))).))))))))))))))))..))).)))))........... ( -40.80, z-score =  -9.26, R)
>droSim1.chr2L 13729867 94 - 22036055
UUACGAAUACUUUACGACUACUGGAAAAGAAAAUGCUGAUACCAUCCAGUCGUAUCAGCGUUUCCUUUUUCAG----UGUCAUA----UACCUAUUCCCAUA
....(((((...((.(((.((((((((((.((((((((((((.........)))))))))))).)))))))))----)))).))----....)))))..... ( -33.10, z-score =  -8.01, R)
>droSec1.super_3 230568 94 - 7220098
UUACGAAUACUUUACGACUACUGGAAAAGAAAAUGCUGAUACCAUCCAGUCGUAUCAGCGUUUCCUUUUUCAG----UGUCAUA----UACCUAUUCCCAUA
....(((((...((.(((.((((((((((.((((((((((((.........)))))))))))).)))))))))----)))).))----....)))))..... ( -33.10, z-score =  -8.01, R)
>consensus
UUACGAAUACUUUACGACUACUGGAAAAGAAAAUGCUGAUACCAUCCAGUCGUAUCAGCGUUUCCUUUUUCAG____UGUCAUA____UACCUAUUCCCAUA
...............(((..(((((((((.((((((((((((.........)))))))))))).))))))))).....)))..................... (-27.45 = -27.57 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:39:05 2011