Locus 10132

Sequence ID dm3.chr3R
Location 11,508,141 – 11,508,241
Length 100
Max. P 0.941660
window13934 window13935

overview

Window 4

Location 11,508,141 – 11,508,241
Length 100
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 84.50
Shannon entropy 0.28186
G+C content 0.53633
Mean single sequence MFE -38.70
Consensus MFE -28.14
Energy contribution -30.70
Covariance contribution 2.56
Combinations/Pair 1.16
Mean z-score -2.26
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.47
SVM RNA-class probability 0.941660
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 11508141 100 + 27905053
UGCCCUGCGGUUUUGUUUCUGCGGUCAAUUUGUUUGUUGGCUGGCGGGCCGGCCGGCCAACUGCAGUGAAAUUAUGCAAUGGUCAUUCCGAUGGGGCUUU
.(((((((((...((((..((((.(((...(((..((((((((((......)))))))))).))).))).....))))..)).))..))).))))))... ( -41.40, z-score =  -2.12, R)
>droSim1.chr3R 17541752 100 - 27517382
UGCCCUGCGGUUUUGUUUCUGCGGUCAGUUUGUUUGUCGGCUGGCUGGCCGGCCGGCCAACUGCAGUGAAAUUAUGCAAUGGUCAUUCCGAUGGGGCUUU
.(((((((((........))))(..((....(((.(((((((((....))))))))).)))((((.........)))).))..)........)))))... ( -40.40, z-score =  -1.87, R)
>droSec1.super_0 10678694 100 - 21120651
UGCCCUGCGGUUUUGUCUCUGCGGUGAGUUUGUUUGUUGGCUGGCUGGCCGGCCGGCCAACUGCAGUGAAAUUAUGCAAUGGUCAUUCCGAUGGGGCUUU
.(((((((((...((((..((((.(((..((((..(((((((((((....))))))))))).)))).....)))))))..)).))..))).))))))... ( -43.60, z-score =  -2.93, R)
>droEre2.scaffold_4770 11024379 96 + 17746568
UGCCCUGCGGUUUUGUCUCUGCGGUCAGUUUGUUUGUUGGCUGGCUGGCCGGCCG----ACUGCAGUGAAAUUAUGCAAUGGUCAUUCCGAUGGGCCUUU
.((((((((......((.((((((((((.....))...((((((....)))))))----))))))).)).....)))).(((.....)))..)))).... ( -38.00, z-score =  -2.27, R)
>droAna3.scaffold_13340 16113983 88 + 23697760
CGGCUUGCGGCUUUGUCGUUGCGGUCAGUCUGUUUGUUU-CUGGCCGACUGACCGGUCAACUGCAGUGAAAAUAUGCAAUGGUCAUAUU-----------
..((..(((((...))))).))((((((((.(((.....-..))).))))))))(..((..((((((....)).)))).))..).....----------- ( -30.10, z-score =  -2.11, R)
>consensus
UGCCCUGCGGUUUUGUCUCUGCGGUCAGUUUGUUUGUUGGCUGGCUGGCCGGCCGGCCAACUGCAGUGAAAUUAUGCAAUGGUCAUUCCGAUGGGGCUUU
.(((((((((...((((..((((......((((..(((((((((((....))))))))))).))))........))))..)).))..))).))))))... (-28.14 = -30.70 +   2.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 11,508,141 – 11,508,241
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 84.50
Shannon entropy 0.28186
G+C content 0.53633
Mean single sequence MFE -29.01
Consensus MFE -17.78
Energy contribution -20.30
Covariance contribution 2.52
Combinations/Pair 1.10
Mean z-score -1.97
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.10
SVM RNA-class probability 0.543874
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 11508141 100 - 27905053
AAAGCCCCAUCGGAAUGACCAUUGCAUAAUUUCACUGCAGUUGGCCGGCCGGCCCGCCAGCCAACAAACAAAUUGACCGCAGAAACAAAACCGCAGGGCA
...((((...(((.(((.......))).......((((.((((((.(((......))).))))))...(.....)...))))........)))..)))). ( -31.40, z-score =  -1.88, R)
>droSim1.chr3R 17541752 100 + 27517382
AAAGCCCCAUCGGAAUGACCAUUGCAUAAUUUCACUGCAGUUGGCCGGCCGGCCAGCCAGCCGACAAACAAACUGACCGCAGAAACAAAACCGCAGGGCA
...((((...(((.(((.......))).......((((.((((((.(((......))).))))))...(.....)...))))........)))..)))). ( -31.20, z-score =  -1.82, R)
>droSec1.super_0 10678694 100 + 21120651
AAAGCCCCAUCGGAAUGACCAUUGCAUAAUUUCACUGCAGUUGGCCGGCCGGCCAGCCAGCCAACAAACAAACUCACCGCAGAGACAAAACCGCAGGGCA
...((((...(((..((.....((((.........))))((((((.(((......))).))))))...))..(((......)))......)))..)))). ( -31.90, z-score =  -2.39, R)
>droEre2.scaffold_4770 11024379 96 - 17746568
AAAGGCCCAUCGGAAUGACCAUUGCAUAAUUUCACUGCAGU----CGGCCGGCCAGCCAGCCAACAAACAAACUGACCGCAGAGACAAAACCGCAGGGCA
....((((..(((.........((((.........))))((----((((.((....)).)))..........(((....))).)))....)))..)))). ( -28.30, z-score =  -1.72, R)
>droAna3.scaffold_13340 16113983 88 - 23697760
-----------AAUAUGACCAUUGCAUAUUUUCACUGCAGUUGACCGGUCAGUCGGCCAG-AAACAAACAGACUGACCGCAACGACAAAGCCGCAAGCCG
-----------((((((.......)))))).....((..((((..(((((((((......-.........)))))))))))))..))..(.(....).). ( -22.26, z-score =  -2.01, R)
>consensus
AAAGCCCCAUCGGAAUGACCAUUGCAUAAUUUCACUGCAGUUGGCCGGCCGGCCAGCCAGCCAACAAACAAACUGACCGCAGAGACAAAACCGCAGGGCA
...((((...(((.........((((.........))))((((((.(((......))).)))))).........................)))..)))). (-17.78 = -20.30 +   2.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:18:07 2011