Locus 3536

Sequence ID dm3.chr2R
Location 6,109,050 – 6,109,104
Length 54
Max. P 0.831386
window4852

overview

Window 2

Location 6,109,050 – 6,109,104
Length 54
Sequences 10
Columns 69
Reading direction forward
Mean pairwise identity 78.35
Shannon entropy 0.38539
G+C content 0.34203
Mean single sequence MFE -11.97
Consensus MFE -9.20
Energy contribution -8.34
Covariance contribution -0.86
Combinations/Pair 1.58
Mean z-score -1.31
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.84
SVM RNA-class probability 0.831386
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2R 6109050 54 + 21146708
UUUGUUGGUAUUACAAUAUG---------------UUUUUACGACUGACGCGCGAAUUUUAAUUCGCAA
...((..((...((.....)---------------).......))..))..((((((....)))))).. ( -10.80, z-score =  -1.32, R)
>droSim1.chr2R 4731548 54 + 19596830
UUUGUUGGUAUUACAAUAUG---------------UUUUUACGACUGACGCGCGAAUUUUAAUUCGCAA
...((..((...((.....)---------------).......))..))..((((((....)))))).. ( -10.80, z-score =  -1.32, R)
>droSec1.super_1 3715685 54 + 14215200
UUUGUUGGUAUUACAAUAUG---------------UUUUUACGACUGACGCGCGAAUUUUAAUUCGCAA
...((..((...((.....)---------------).......))..))..((((((....)))))).. ( -10.80, z-score =  -1.32, R)
>droEre2.scaffold_4929 18371867 54 - 26641161
AUUGUUGGUAUUACAAUAUG---------------UUUUUACGACUGACGAGCGAAUUUUAAUUCGCAA
.((((..((...((.....)---------------).......))..))))((((((....)))))).. ( -12.30, z-score =  -2.44, R)
>droYak2.chr2L 18734825 54 + 22324452
UUGGUUGGUAUUACAAUAUG---------------UUUUUACGACUGACGCGCGAAUUUUAAUUCGCAA
(..((((.....((.....)---------------).....))))..)...((((((....)))))).. ( -12.30, z-score =  -1.83, R)
>droAna3.scaffold_13266 4575886 69 + 19884421
UUUGUUGGCCUUACAAUAUCGCAUUUAUUUAUUUAUUUUUAUGACUUGCCUGCGAAUUGAAAUUCGCAA
..(((((......)))))..(((.((((..(......)..))))..))).(((((((....))))))). ( -11.90, z-score =  -1.51, R)
>dp4.chr3 6945249 62 + 19779522
GUUGUUGGCAUUACAAUAUCGCAUUUAU-------UUUUUAUGGCCAGCGCGCGAGCUUUAAUUCGCAA
((.((((((.....((((.......)))-------).......))))))))(((((......))))).. ( -14.40, z-score =  -0.78, R)
>droPer1.super_2 7147337 62 + 9036312
GUUGUUGGCAUUACAAUAUCGCAUUUAU-------UUUUUAUGGCCAGCGCGCGAGCUUUAAUUCGCAA
((.((((((.....((((.......)))-------).......))))))))(((((......))))).. ( -14.40, z-score =  -0.78, R)
>droVir3.scaffold_12875 15980768 56 + 20611582
UUUGUUGGCAUUACAAUAUCGC-------------UUUUUAUUGCUGGCGCGCGAAUUUUAAUUUGCAA
...((..(((.((.((......-------------.)).)).)))..))..((((((....)))))).. ( -12.50, z-score =  -0.76, R)
>droGri2.scaffold_15245 12785974 56 + 18325388
UUUUUUGGCAUUACAAUAUCGC-------------UUUUUAUUGUUGGUUCGCGAAUUUUAAUUUGCAA
......(((...((((((....-------------....))))))..))).((((((....)))))).. (  -9.50, z-score =  -1.08, R)
>consensus
UUUGUUGGCAUUACAAUAUC_______________UUUUUACGACUGACGCGCGAAUUUUAAUUCGCAA
...((((((..................................))))))..((((((....)))))).. ( -9.20 =  -8.34 +  -0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:12:02 2011