Locus 10053

Sequence ID dm3.chr3R
Location 10,879,417 – 10,879,502
Length 85
Max. P 0.981204
window13818 window13819

overview

Window 8

Location 10,879,417 – 10,879,502
Length 85
Sequences 7
Columns 87
Reading direction forward
Mean pairwise identity 63.75
Shannon entropy 0.73896
G+C content 0.42807
Mean single sequence MFE -17.93
Consensus MFE -3.55
Energy contribution -4.60
Covariance contribution 1.05
Combinations/Pair 1.71
Mean z-score -2.24
Structure conservation index 0.20
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.52
SVM RNA-class probability 0.729592
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10879417 85 + 27905053
CUGUUUGAUGGAUUCAAUGUGCGCUUGCUUCCAAAAAUCCAACAUACGAAAGCGAA--CGCAUACUAAUCCAACGCAAAACCCAAUA
...((((.((((((...((((((.((((((.(...............).)))))).--))))))..))))))...))))........ ( -19.96, z-score =  -3.34, R)
>droEre2.scaffold_4770 10412907 85 + 17746568
CUGUUUGAUGGAUUCAAUGUCCGCUUGCUCCUAAAAAUCCAACAUCCAGGAGCGAA--CGCGUACUAAUCCAACGCAAAACCAAAUA
...((((.((((((....((.(((((((((((...............)))))))).--.))).)).))))))...))))........ ( -21.56, z-score =  -3.44, R)
>droYak2.chr3R 13290022 85 - 28832112
CUGUUUGAUGGAUUCCAUGUCCGCUUGCUCCCAAAAAUCCAACAUCCGAAAGCAAG--CGCGUACUAAUCCAACGCAAAACCCAAUA
...((((.((((((....(((((((((((..(...............)..))))))--)).).)).))))))...))))........ ( -18.46, z-score =  -3.04, R)
>droSec1.super_0 10059157 85 - 21120651
CUGUUUGAUGGAUUCCAUGUGCGCUCGCUUCCAAAAAUCCAACAUCCGAAAGCGGA--CGCAUACUAAUCCAACGCAAAACCCAAUA
...((((.((((((...((((((..(((((.(...............).)))))..--))))))..))))))...))))........ ( -22.26, z-score =  -3.45, R)
>droSim1.chr3R 16936903 85 - 27517382
CUGUUUGAUGGAUUCCAUGUGCGCUUGCUUCCAAAAAUCCAACAUCCGAAAGCGGA--CGCAUACUAAUCCAACGCAAAAUCCAAUA
...((((.((((((...((((((..(((((.(...............).)))))..--))))))..))))))...))))........ ( -19.36, z-score =  -2.17, R)
>droPer1.super_3 3603755 87 + 7375914
CGGUUUGAUUGAUGCCACGAUUAAUUGUUUGAGCUGCUAAAGUAAAUUAGCUUCAAACCGUACACUCACACCACACUACACCACAUC
.(((.(((.(((((............(((((((..(((((......))))))))))))))).)).))).)))............... ( -15.40, z-score =  -1.06, R)
>droWil1.scaffold_181089 8774481 81 + 12369635
UCUUUUUCUGGUUGUAUUUUUUAUCUCUCUUCCUCCUUUCUGUGUGAGUGUGCGUGGGUGUAUGUAAACUGAAACCAAUGA------
........(((((.((.(((.((((.(((..(((((.......).))).).....))).).))).))).)).)))))....------ (  -8.50, z-score =   0.80, R)
>consensus
CUGUUUGAUGGAUUCCAUGUGCGCUUGCUUCCAAAAAUCCAACAUCCGAAAGCGAA__CGCAUACUAAUCCAACGCAAAACCCAAUA
......(.((((((..((((....((((((...................))))))....))))...)))))).)............. ( -3.55 =  -4.60 +   1.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 10,879,417 – 10,879,502
Length 85
Sequences 7
Columns 87
Reading direction reverse
Mean pairwise identity 63.75
Shannon entropy 0.73896
G+C content 0.42807
Mean single sequence MFE -22.46
Consensus MFE -9.32
Energy contribution -9.99
Covariance contribution 0.66
Combinations/Pair 1.80
Mean z-score -1.69
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.07
SVM RNA-class probability 0.981204
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10879417 85 - 27905053
UAUUGGGUUUUGCGUUGGAUUAGUAUGCG--UUCGCUUUCGUAUGUUGGAUUUUUGGAAGCAAGCGCACAUUGAAUCCAUCAAACAG
........((((...(((((((((.((((--((.(((((((.............))))))).)))))).)))).))))).))))... ( -23.92, z-score =  -1.97, R)
>droEre2.scaffold_4770 10412907 85 - 17746568
UAUUUGGUUUUGCGUUGGAUUAGUACGCG--UUCGCUCCUGGAUGUUGGAUUUUUAGGAGCAAGCGGACAUUGAAUCCAUCAAACAG
........((((...((((((.((.(((.--...(((((((((.........)))))))))..))).))....)))))).))))... ( -24.10, z-score =  -1.83, R)
>droYak2.chr3R 13290022 85 + 28832112
UAUUGGGUUUUGCGUUGGAUUAGUACGCG--CUUGCUUUCGGAUGUUGGAUUUUUGGGAGCAAGCGGACAUGGAAUCCAUCAAACAG
...((((((((((((.........))))(--((((((..((((.........))))..)))))))......))))))))........ ( -28.60, z-score =  -3.36, R)
>droSec1.super_0 10059157 85 + 21120651
UAUUGGGUUUUGCGUUGGAUUAGUAUGCG--UCCGCUUUCGGAUGUUGGAUUUUUGGAAGCGAGCGCACAUGGAAUCCAUCAAACAG
........((((...((((((.((.((((--..((((((((((.........))))))))))..)))).))..)))))).))))... ( -28.40, z-score =  -2.66, R)
>droSim1.chr3R 16936903 85 + 27517382
UAUUGGAUUUUGCGUUGGAUUAGUAUGCG--UCCGCUUUCGGAUGUUGGAUUUUUGGAAGCAAGCGCACAUGGAAUCCAUCAAACAG
...(((((((((((((((((........)--)))(((((((((.........))))))))).))))))....)))))))........ ( -26.10, z-score =  -2.23, R)
>droPer1.super_3 3603755 87 - 7375914
GAUGUGGUGUAGUGUGGUGUGAGUGUACGGUUUGAAGCUAAUUUACUUUAGCAGCUCAAACAAUUAAUCGUGGCAUCAAUCAAACCG
.....(((......((((((.((......((((((.(((((......)))))...)))))).......).).)))))).....))). ( -20.22, z-score =  -0.44, R)
>droWil1.scaffold_181089 8774481 81 - 12369635
------UCAUUGGUUUCAGUUUACAUACACCCACGCACACUCACACAGAAAGGAGGAAGAGAGAUAAAAAAUACAACCAGAAAAAGA
------...((((((...((......))...........(((.(.......))))...................))))))....... (  -5.90, z-score =   0.65, R)
>consensus
UAUUGGGUUUUGCGUUGGAUUAGUAUGCG__UUCGCUUUCGGAUGUUGGAUUUUUGGAAGCAAGCGCACAUGGAAUCCAUCAAACAG
...(((((((.((((.........))))......(((((((((.........)))))))))...........)))))))........ ( -9.32 =  -9.99 +   0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:16:30 2011