Locus 10699

Sequence ID dm3.chr3R
Location 15,828,264 – 15,828,361
Length 97
Max. P 0.979244
window14708 window14709

overview

Window 8

Location 15,828,264 – 15,828,361
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 96.55
Shannon entropy 0.04733
G+C content 0.44638
Mean single sequence MFE -30.67
Consensus MFE -29.85
Energy contribution -29.53
Covariance contribution -0.33
Combinations/Pair 1.12
Mean z-score -2.29
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.02
SVM RNA-class probability 0.979244
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15828264 97 + 27905053
UGCCACAACCGCACAUAUAUUUCAGAUGGCUGAUAGUUUAAUUGGCCUGGACUUUAUGUGCUGUGCGGUUUUUGUUUGCCCUCGUCUUGGCUGUUUU
.((((..((.(((((((...((((...(((..((......))..)))))))...))))))).(.(.(((........)))).)))..))))...... ( -27.80, z-score =  -1.63, R)
>droSim1.chr3R 21871334 96 - 27517382
-ACAGCAGCCGCACAUAUAUUUCAGAUGGCUGAUAGUUUAAUUGGCCUGGACUUUAUGUGCUGUGCGGUUUUUGUUUGCCCUCGUCUUGGCUGUUUU
-..((((((((((((((...((((...(((..((......))..)))))))...))))))).(.(.(((........)))).).....))))))).. ( -32.10, z-score =  -2.62, R)
>droSec1.super_58 68704 96 - 188520
-ACAGCAGCCGCACAUAUAUUUCAGAUGGCUGAUAGUUUAAUUGGCCUGGACUUUAUGUGCUGUGCGGUUUUUGUUUGCCCUCGUCUUGGCUGUUUU
-..((((((((((((((...((((...(((..((......))..)))))))...))))))).(.(.(((........)))).).....))))))).. ( -32.10, z-score =  -2.62, R)
>consensus
_ACAGCAGCCGCACAUAUAUUUCAGAUGGCUGAUAGUUUAAUUGGCCUGGACUUUAUGUGCUGUGCGGUUUUUGUUUGCCCUCGUCUUGGCUGUUUU
.((((.((((((((((((((.......(((..((......))..)))........))))).))))))))).))))..(((........)))...... (-29.85 = -29.53 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 15,828,264 – 15,828,361
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 96.55
Shannon entropy 0.04733
G+C content 0.44638
Mean single sequence MFE -23.03
Consensus MFE -22.09
Energy contribution -21.87
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.40
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.768407
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15828264 97 - 27905053
AAAACAGCCAAGACGAGGGCAAACAAAAACCGCACAGCACAUAAAGUCCAGGCCAAUUAAACUAUCAGCCAUCUGAAAUAUAUGUGCGGUUGUGGCA
......((((......(......)...(((((((((........((....(((..((......))..)))..))........))))))))).)))). ( -23.89, z-score =  -1.57, R)
>droSim1.chr3R 21871334 96 + 27517382
AAAACAGCCAAGACGAGGGCAAACAAAAACCGCACAGCACAUAAAGUCCAGGCCAAUUAAACUAUCAGCCAUCUGAAAUAUAUGUGCGGCUGCUGU-
....(((((.....(.((...........)).)...(((((((...((..(((..((......))..)))....))....))))))))))))....- ( -22.60, z-score =  -1.32, R)
>droSec1.super_58 68704 96 + 188520
AAAACAGCCAAGACGAGGGCAAACAAAAACCGCACAGCACAUAAAGUCCAGGCCAAUUAAACUAUCAGCCAUCUGAAAUAUAUGUGCGGCUGCUGU-
....(((((.....(.((...........)).)...(((((((...((..(((..((......))..)))....))....))))))))))))....- ( -22.60, z-score =  -1.32, R)
>consensus
AAAACAGCCAAGACGAGGGCAAACAAAAACCGCACAGCACAUAAAGUCCAGGCCAAUUAAACUAUCAGCCAUCUGAAAUAUAUGUGCGGCUGCUGU_
....(((((.....(.((...........)).)...(((((((...((..(((..((......))..)))....))....))))))))))))..... (-22.09 = -21.87 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:28:51 2011