Locus 7235

Sequence ID dm3.chr3L
Location 13,209,198 – 13,209,293
Length 95
Max. P 0.963527
window9963 window9964

overview

Window 3

Location 13,209,198 – 13,209,293
Length 95
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 92.00
Shannon entropy 0.15216
G+C content 0.53460
Mean single sequence MFE -28.48
Consensus MFE -24.16
Energy contribution -23.38
Covariance contribution -0.77
Combinations/Pair 1.25
Mean z-score -1.84
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.75
SVM RNA-class probability 0.807672
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13209198 95 + 24543557
UGAGCCGUCGCUGCUGCUAAGUCCCUUGACAUAUGGACUUUCAUUGACAACGACCACAGUACAGCAACGGCCAUAACCGACAUGACCGGCGGCAU
...((((((((((.((((((((((..........))))))...(((....)))....))))))))..(((......)))........)))))).. ( -28.40, z-score =  -2.08, R)
>droSim1.chr3L 12604531 95 + 22553184
UGAGCCGUUGCUGCUGCUAAGUCCCUUGACAUAUGGACUUUCAUUGACAACGACCACAGUACAGCAACGGCCAUAACCGACAUGACCGGCGGCAU
((.((((((((((.((((((((((..........))))))...(((....)))....))))))))))))))))...(((.(......).)))... ( -29.30, z-score =  -2.51, R)
>droSec1.super_0 5384662 95 + 21120651
UGAGCCGUUGCUGCUGCUAAGUCCCUUGACAUAUGGACUUUCAUUGACAACGACCACAGUACAGCAACGGCCAUAACCGACAUGACCGGCGGCAU
((.((((((((((.((((((((((..........))))))...(((....)))....))))))))))))))))...(((.(......).)))... ( -29.30, z-score =  -2.51, R)
>droYak2.chr3L 13296558 95 + 24197627
UGAGCCGUUGUUGCUGCUAAGUCCCUUGACAUAUGGACUUUCAUUGACAACGACCGCAGUACAGCAACGGCCAUAACCGACAUGACCGGCGGCAU
((.((((((((((((((.((((((..........))))))...(((....)))..))))..))))))))))))...(((.(......).)))... ( -28.70, z-score =  -1.80, R)
>droEre2.scaffold_4784 13219085 95 + 25762168
UGAGCCGUUGCUGCUGCUAAGUCCCUUGACAUAUGGACCUUCAUUGACAGCGACCACAGUACAGCAACGGCCAUAACCGACAUGACCGGCGGCAU
((.((((((((((.((((..(((.((.(.((.((((....)))))).))).)))...))))))))))))))))...(((.(......).)))... ( -29.20, z-score =  -1.83, R)
>droAna3.scaffold_13337 11021423 90 - 23293914
---GCCGUUGUUGCUGUUAAGUCGCCUGACAUAUGGACUUGCAUUGACGGACACCGCAGUACAGCACCGGCCAUAACCAAUAUAACCGGCGGC--
---(((((((.((((((((((((............)))))).((((.(((...)))))))))))))..((......))........)))))))-- ( -26.00, z-score =  -0.31, R)
>consensus
UGAGCCGUUGCUGCUGCUAAGUCCCUUGACAUAUGGACUUUCAUUGACAACGACCACAGUACAGCAACGGCCAUAACCGACAUGACCGGCGGCAU
...((((((((((.((((..(..(.(((.((.(((......))))).))).)..)..)))))))))))))).....(((.(......).)))... (-24.16 = -23.38 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 13,209,198 – 13,209,293
Length 95
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 92.00
Shannon entropy 0.15216
G+C content 0.53460
Mean single sequence MFE -35.30
Consensus MFE -33.67
Energy contribution -32.98
Covariance contribution -0.69
Combinations/Pair 1.19
Mean z-score -1.91
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.72
SVM RNA-class probability 0.963527
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13209198 95 - 24543557
AUGCCGCCGGUCAUGUCGGUUAUGGCCGUUGCUGUACUGUGGUCGUUGUCAAUGAAAGUCCAUAUGUCAAGGGACUUAGCAGCAGCGACGGCUCA
..((((.((((((((.....)))))))((((((((.......((((.....))))((((((..........)))))).))))))))).))))... ( -36.20, z-score =  -2.04, R)
>droSim1.chr3L 12604531 95 - 22553184
AUGCCGCCGGUCAUGUCGGUUAUGGCCGUUGCUGUACUGUGGUCGUUGUCAAUGAAAGUCCAUAUGUCAAGGGACUUAGCAGCAGCAACGGCUCA
.....((((((((((.....)))))))(((((((..((((..((((.....))))((((((..........)))))).))))))))))))))... ( -35.90, z-score =  -2.24, R)
>droSec1.super_0 5384662 95 - 21120651
AUGCCGCCGGUCAUGUCGGUUAUGGCCGUUGCUGUACUGUGGUCGUUGUCAAUGAAAGUCCAUAUGUCAAGGGACUUAGCAGCAGCAACGGCUCA
.....((((((((((.....)))))))(((((((..((((..((((.....))))((((((..........)))))).))))))))))))))... ( -35.90, z-score =  -2.24, R)
>droYak2.chr3L 13296558 95 - 24197627
AUGCCGCCGGUCAUGUCGGUUAUGGCCGUUGCUGUACUGCGGUCGUUGUCAAUGAAAGUCCAUAUGUCAAGGGACUUAGCAGCAACAACGGCUCA
..((((..(((((((.....)))))))((((((((.......((((.....))))((((((..........)))))).))))))))..))))... ( -35.50, z-score =  -2.24, R)
>droEre2.scaffold_4784 13219085 95 - 25762168
AUGCCGCCGGUCAUGUCGGUUAUGGCCGUUGCUGUACUGUGGUCGCUGUCAAUGAAGGUCCAUAUGUCAAGGGACUUAGCAGCAGCAACGGCUCA
.....((((((((((.....)))))))(((((((..((((((((.(((.(((((......))).)).).)).))))..))))))))))))))... ( -37.50, z-score =  -2.02, R)
>droAna3.scaffold_13337 11021423 90 + 23293914
--GCCGCCGGUUAUAUUGGUUAUGGCCGGUGCUGUACUGCGGUGUCCGUCAAUGCAAGUCCAUAUGUCAGGCGACUUAACAGCAACAACGGC---
--(((((((((((((.....)))))))))((((((...(((.((.....)).)))((((((.........).))))).))))))....))))--- ( -30.80, z-score =  -0.70, R)
>consensus
AUGCCGCCGGUCAUGUCGGUUAUGGCCGUUGCUGUACUGUGGUCGUUGUCAAUGAAAGUCCAUAUGUCAAGGGACUUAGCAGCAGCAACGGCUCA
..((((..(((((((.....)))))))((((((((.....((((.(((.(((((......))).)).).)).))))..))))))))..))))... (-33.67 = -32.98 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:23:06 2011