Locus 13183

Sequence ID dm3.chrX
Location 4,819,539 – 4,819,628
Length 89
Max. P 0.920600
window18129 window18130

overview

Window 9

Location 4,819,539 – 4,819,628
Length 89
Sequences 3
Columns 91
Reading direction forward
Mean pairwise identity 87.50
Shannon entropy 0.17155
G+C content 0.59597
Mean single sequence MFE -33.97
Consensus MFE -27.59
Energy contribution -27.03
Covariance contribution -0.55
Combinations/Pair 1.09
Mean z-score -2.28
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.28
SVM RNA-class probability 0.920600
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4819539 89 + 22422827
AAACAAGUCCCUCC-UUCCGCUCGACAGACGCUGGAAAAUCAAAGCCAGCGGAAGUGACUUCC-GGCGGUUAAGAUUUUCCAGCGCCUGUG
..............-.........((((.((((((((((((..((((..((((((...)))))-)..))))..)))))))))))).)))). ( -36.90, z-score =  -4.60, R)
>droSim1.chrX 3726471 90 + 17042790
CAACAAGUCCCUCCCUUCUGCUCGACCGAAGCCGGAGCAUCGAAGCCGGCGGAAGUAGCUUCC-GGCGGUUAAGAAACUCCAGCGCCGGUG
........................((((..((.((((..((..(((((.((((((...)))))-).)))))..))..)))).))..)))). ( -34.40, z-score =  -1.75, R)
>droSec1.super_4 4252175 91 - 6179234
CAACAAGUCCCUCCCUUCUGCUCGACCGAAGCCGGAGCAUCGAAGCCGGCGGAAGUAGCUUCCCGGCGGUUAAGAAACUCCAGCGCCGGUG
........................((((..((.((((..((..(((((.((((((...))).))).)))))..))..)))).))..)))). ( -30.60, z-score =  -0.50, R)
>consensus
CAACAAGUCCCUCCCUUCUGCUCGACCGAAGCCGGAGCAUCGAAGCCGGCGGAAGUAGCUUCC_GGCGGUUAAGAAACUCCAGCGCCGGUG
........................((((..((.((((..((..(((((.((((((...))))).).)))))..))..)))).))..)))). (-27.59 = -27.03 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 4,819,539 – 4,819,628
Length 89
Sequences 3
Columns 91
Reading direction reverse
Mean pairwise identity 87.50
Shannon entropy 0.17155
G+C content 0.59597
Mean single sequence MFE -37.83
Consensus MFE -31.07
Energy contribution -29.30
Covariance contribution -1.77
Combinations/Pair 1.17
Mean z-score -1.83
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.59
SVM RNA-class probability 0.754990
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4819539 89 - 22422827
CACAGGCGCUGGAAAAUCUUAACCGCC-GGAAGUCACUUCCGCUGGCUUUGAUUUUCCAGCGUCUGUCGAGCGGAA-GGAGGGACUUGUUU
.(((((((((((((((((..(.(((.(-(((((...)))))).))).)..)))))))))))))))))....(....-)............. ( -40.90, z-score =  -4.10, R)
>droSim1.chrX 3726471 90 - 17042790
CACCGGCGCUGGAGUUUCUUAACCGCC-GGAAGCUACUUCCGCCGGCUUCGAUGCUCCGGCUUCGGUCGAGCAGAAGGGAGGGACUUGUUG
..((((((..(((((((((........-))))))).))..))))))((((..(((((.(((....))))))))....)))).......... ( -36.10, z-score =  -0.79, R)
>droSec1.super_4 4252175 91 + 6179234
CACCGGCGCUGGAGUUUCUUAACCGCCGGGAAGCUACUUCCGCCGGCUUCGAUGCUCCGGCUUCGGUCGAGCAGAAGGGAGGGACUUGUUG
..((((((..((((((((((.......)))))))).))..))))))((((..(((((.(((....))))))))....)))).......... ( -36.50, z-score =  -0.60, R)
>consensus
CACCGGCGCUGGAGUUUCUUAACCGCC_GGAAGCUACUUCCGCCGGCUUCGAUGCUCCGGCUUCGGUCGAGCAGAAGGGAGGGACUUGUUG
.(((((.((((((((.((..(.(((.(.(((((...)))))).))).)..)).)))))))).)))))(((((..........).))))... (-31.07 = -29.30 +  -1.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:16:19 2011