Locus 8490

Sequence ID dm3.chr3L
Location 23,681,192 – 23,681,245
Length 53
Max. P 0.975793
window11662 window11663

overview

Window 2

Location 23,681,192 – 23,681,245
Length 53
Sequences 3
Columns 55
Reading direction forward
Mean pairwise identity 92.73
Shannon entropy 0.10772
G+C content 0.37473
Mean single sequence MFE -8.53
Consensus MFE -8.57
Energy contribution -8.90
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.94
SVM RNA-class probability 0.975793
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 23681192 53 + 24543557
UUUUUAUUUGCACUUCGCAAAUAAUUAACUUAU--CUAGUCCGGCCGCCGCCAAC
...((((((((.....)))))))).........--.......(((....)))... ( -10.80, z-score =  -2.76, R)
>droSec1.super_51 140127 55 + 201256
UUUUUAUUUGCACUUCGCAAAUAAUUAACUUAUAUCUAGUCCGGCCGUUGCCAAC
...((((((((.....))))))))..................(((....)))... ( -10.70, z-score =  -2.77, R)
>droSim1.chrU 13127606 55 - 15797150
UUUUUAUUUACACUUCGCAAAUAAUUAACUUAUUACUAGUCCGGCCGUUGCCAAC
...((((((.(.....).))))))..................(((....)))... (  -4.10, z-score =  -0.00, R)
>consensus
UUUUUAUUUGCACUUCGCAAAUAAUUAACUUAU__CUAGUCCGGCCGUUGCCAAC
...((((((((.....))))))))..................(((....)))... ( -8.57 =  -8.90 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 23,681,192 – 23,681,245
Length 53
Sequences 3
Columns 55
Reading direction reverse
Mean pairwise identity 92.73
Shannon entropy 0.10772
G+C content 0.37473
Mean single sequence MFE -11.47
Consensus MFE -11.52
Energy contribution -11.30
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -1.28
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.12
SVM RNA-class probability 0.895685
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 23681192 53 - 24543557
GUUGGCGGCGGCCGGACUAG--AUAAGUUAAUUAUUUGCGAAGUGCAAAUAAAAA
..((((....))))((((..--...))))..((((((((.....))))))))... ( -12.40, z-score =  -1.20, R)
>droSec1.super_51 140127 55 - 201256
GUUGGCAACGGCCGGACUAGAUAUAAGUUAAUUAUUUGCGAAGUGCAAAUAAAAA
((((....))))..((((.......))))..((((((((.....))))))))... ( -12.00, z-score =  -1.74, R)
>droSim1.chrU 13127606 55 + 15797150
GUUGGCAACGGCCGGACUAGUAAUAAGUUAAUUAUUUGCGAAGUGUAAAUAAAAA
((((....))))..((((.......))))..((((((((.....))))))))... ( -10.00, z-score =  -0.91, R)
>consensus
GUUGGCAACGGCCGGACUAG__AUAAGUUAAUUAUUUGCGAAGUGCAAAUAAAAA
..((((....))))((((.......))))..((((((((.....))))))))... (-11.52 = -11.30 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:46:36 2011