Locus 15777

Sequence ID dm3.chrX
Location 20,991,638 – 20,991,737
Length 99
Max. P 0.956758
window21742 window21743

overview

Window 2

Location 20,991,638 – 20,991,737
Length 99
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 78.52
Shannon entropy 0.41772
G+C content 0.56322
Mean single sequence MFE -35.52
Consensus MFE -26.68
Energy contribution -28.03
Covariance contribution 1.35
Combinations/Pair 1.26
Mean z-score -1.68
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.63
SVM RNA-class probability 0.956758
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20991638 99 + 22422827
UCGGACGGCGGCGCUUGAUUGGGUUCA-GUCGUGACCUUGUCGAGGCCAAAGGGCGCCGCUCACUAAGCUCAUCCCGUCGACGAAUUGAGCGGAACUUAC
......((((((.((((((.(((((..-.....))))).))))))(((....)))))))))......(((((...((....))...)))))......... ( -36.10, z-score =  -0.58, R)
>droSim1.chrX_random 258799 99 - 5698898
UCGAACGGCGGCGCUUGAUUGGCUUCA-GUCGUGACCUUGUCGAGGCCAAAGGGCGCCGCCCACUAAGCUCAUCCCGUCGACGAAUCGAGCGGAACUUCC
......((((((((((..((((((((.-(.((......)).))))))))).)))))))))).............(((((((....)))).)))....... ( -41.20, z-score =  -1.97, R)
>droSec1.super_8 3274907 99 + 3762037
UCGAACGGCGGCGCUUGAUUGGCUUCA-GUCGUAACCUUGUCGAGGCCAAAGGGCGCCGCCCACUAAGCUCAUCCCGUCGACGAAUCGAGCGGAACUUAC
......((((((((((..((((((((.-(.((......)).))))))))).)))))))))).............(((((((....)))).)))....... ( -41.20, z-score =  -2.63, R)
>droYak2.chrX 20192087 99 + 21770863
UCGAACGGCGGCGCUUGAUUGGCUUCA-CUCGUGACCUUGUUGAGGCCAAAGGGCGCCGCUUACUAAGCUCAUCCCGUCGACGAAUCGAGCGGAACUUAC
......((((((((((..(((((((((-..((......)).))))))))).)))))))))).............(((((((....)))).)))....... ( -39.50, z-score =  -2.62, R)
>droEre2.scaffold_4690 17557935 99 + 18748788
UAAAACGGCGGCGUUUGAUUGGGCUCA-GUCGUGACCUUGCUGAGGCCAAAGGGCGCCGCUCACUAAGCUCAUCCCGUCGACUAAUUGAGCGGAACUUAU
......((((((((((..((((.((((-(.((......))))))).)))).))))))))))......(((((..............)))))......... ( -37.84, z-score =  -2.25, R)
>droAna3.scaffold_13334 333147 80 - 1562580
CUGAAAAGCGGCGCUUGAUUGGCUUUAAGGCGUGACCUUGUGGGGGUCAAAGGGGCAAUCGUAAAAAUUACAAAAAUUCU--------------------
..(((((((...))))(((((.((((......((((((.....)))))).)))).)))))................))).-------------------- ( -17.30, z-score =  -0.04, R)
>consensus
UCGAACGGCGGCGCUUGAUUGGCUUCA_GUCGUGACCUUGUCGAGGCCAAAGGGCGCCGCUCACUAAGCUCAUCCCGUCGACGAAUCGAGCGGAACUUAC
......((((((((((..((((((((....((......))..)))))))).)))))))))).............(((((((....)))).)))....... (-26.68 = -28.03 +   1.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 20,991,638 – 20,991,737
Length 99
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 78.52
Shannon entropy 0.41772
G+C content 0.56322
Mean single sequence MFE -32.27
Consensus MFE -21.15
Energy contribution -24.48
Covariance contribution 3.33
Combinations/Pair 1.08
Mean z-score -1.12
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.10
SVM RNA-class probability 0.544111
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20991638 99 - 22422827
GUAAGUUCCGCUCAAUUCGUCGACGGGAUGAGCUUAGUGAGCGGCGCCCUUUGGCCUCGACAAGGUCACGAC-UGAACCCAAUCAAGCGCCGCCGUCCGA
.........(((((.((((....)))).))))).....(.(((((((....((((((.....)))))).((.-((....)).))..))))))))...... ( -33.40, z-score =  -0.64, R)
>droSim1.chrX_random 258799 99 + 5698898
GGAAGUUCCGCUCGAUUCGUCGACGGGAUGAGCUUAGUGGGCGGCGCCCUUUGGCCUCGACAAGGUCACGAC-UGAAGCCAAUCAAGCGCCGCCGUUCGA
....((((((.((((....))))))))))((((......((((((((...(((((.(((....(....)...-))).)))))....)))))))))))).. ( -39.60, z-score =  -0.83, R)
>droSec1.super_8 3274907 99 - 3762037
GUAAGUUCCGCUCGAUUCGUCGACGGGAUGAGCUUAGUGGGCGGCGCCCUUUGGCCUCGACAAGGUUACGAC-UGAAGCCAAUCAAGCGCCGCCGUUCGA
((..((((((.((((....))))))))))..))......((((((((...(((((.(((....(....)...-))).)))))....))))))))...... ( -40.00, z-score =  -1.56, R)
>droYak2.chrX 20192087 99 - 21770863
GUAAGUUCCGCUCGAUUCGUCGACGGGAUGAGCUUAGUAAGCGGCGCCCUUUGGCCUCAACAAGGUCACGAG-UGAAGCCAAUCAAGCGCCGCCGUUCGA
((..((((((.((((....))))))))))..)).......(((((((...(((((.(((....(....)...-))).)))))....)))))))....... ( -37.80, z-score =  -2.04, R)
>droEre2.scaffold_4690 17557935 99 - 18748788
AUAAGUUCCGCUCAAUUAGUCGACGGGAUGAGCUUAGUGAGCGGCGCCCUUUGGCCUCAGCAAGGUCACGAC-UGAGCCCAAUCAAACGCCGCCGUUUUA
.(((((((..(((...........)))..)))))))..(.((((((....((((.(((((...(....)..)-)))).)))).....)))))))...... ( -31.30, z-score =  -0.88, R)
>droAna3.scaffold_13334 333147 80 + 1562580
--------------------AGAAUUUUUGUAAUUUUUACGAUUGCCCCUUUGACCCCCACAAGGUCACGCCUUAAAGCCAAUCAAGCGCCGCUUUUCAG
--------------------.(((................(((((......(((((.......))))).((......)))))))((((...))))))).. ( -11.50, z-score =  -0.74, R)
>consensus
GUAAGUUCCGCUCGAUUCGUCGACGGGAUGAGCUUAGUGAGCGGCGCCCUUUGGCCUCGACAAGGUCACGAC_UGAAGCCAAUCAAGCGCCGCCGUUCGA
.........(((((.((((....)))).))))).......(((((((...(((((.(((....(....)....))).)))))....)))))))....... (-21.15 = -24.48 +   3.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:05:42 2011