Locus 10511

Sequence ID dm3.chr3R
Location 14,306,307 – 14,306,421
Length 114
Max. P 0.721021
window14455 window14456

overview

Window 5

Location 14,306,307 – 14,306,421
Length 114
Sequences 9
Columns 120
Reading direction forward
Mean pairwise identity 97.11
Shannon entropy 0.06291
G+C content 0.44837
Mean single sequence MFE -33.89
Consensus MFE -31.49
Energy contribution -31.43
Covariance contribution -0.06
Combinations/Pair 1.11
Mean z-score -1.24
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.528941
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14306307 114 + 27905053
UGCCACAACGUUGCGGUUGCAGUUGUUUUUAGCGAGUGUUCGUUGCAAAUGCUGCAAAUAAUGCUAAAAGUCUAAAAAGAACACGUCCAGCAACAACUUAGACGACGCGACGUC------
.......((((((((......(((.((((((((.((((((..(((((.....)))))..))))))....).))))))).))).((((.((......))..)))).)))))))).------ ( -33.50, z-score =  -1.18, R)
>droSim1.chr3R 20341428 114 - 27517382
UGCCACAACGUUGCGGUUGCAGUUGUUUUUAGCGAGUGUUCGUUGCAAAUGCUGCAAAUAAUGCUAAAAGUCUAAAAAGAACACGUCCAGCAACAACUUAGACGACGCGACGUC------
.......((((((((......(((.((((((((.((((((..(((((.....)))))..))))))....).))))))).))).((((.((......))..)))).)))))))).------ ( -33.50, z-score =  -1.18, R)
>droSec1.super_5 277547 114 - 5866729
UGCCACAACGUUGCGGUUGCAGUUGUUUUUAGCGAGUGUUCGUUGCAAAUGCUGCAAAUAAUGCUAAAAGUCUAAAAAGAACACGUCCAGCAACAACUUAGACGACGCGACGUC------
.......((((((((......(((.((((((((.((((((..(((((.....)))))..))))))....).))))))).))).((((.((......))..)))).)))))))).------ ( -33.50, z-score =  -1.18, R)
>droYak2.chr3R 2940422 114 + 28832112
UGCCACAACGUUGCGGUUGCAGUUGUUUUUAGCGAGUGUUCGUUGCAAAUGCUGCAAAUAAUGCUAAAAGUCUAAAAAGAACACGUCCAGCAACAACUUAGACGACGCGACGUC------
.......((((((((......(((.((((((((.((((((..(((((.....)))))..))))))....).))))))).))).((((.((......))..)))).)))))))).------ ( -33.50, z-score =  -1.18, R)
>droEre2.scaffold_4770 10414798 120 - 17746568
UGCCACAACGUUGCGGUUGCAGUUGUUUUUAGCGAGUGUUCGUUGCAAAUGCUGCAAAUAAUGCUAAAAGUCUAAAAAGAACACGUCCAGCAACAACUUAGACGACGCGACGUCGCAGUC
(((....((((((((......(((.((((((((.((((((..(((((.....)))))..))))))....).))))))).))).((((.((......))..)))).)))))))).)))... ( -35.40, z-score =  -0.85, R)
>droAna3.scaffold_13340 13898164 114 - 23697760
UGCCACAACGUUGCGGUUGCAGUUGUUUUUAGCGAGUGUUCGUUGCAAAUGCUGCAAAUAAUGCUAAAAGUCUAAAAAGAACACGUCCAGCAACAACUUAGACGACGCGACGUC------
.......((((((((......(((.((((((((.((((((..(((((.....)))))..))))))....).))))))).))).((((.((......))..)))).)))))))).------ ( -33.50, z-score =  -1.18, R)
>dp4.chr2 18907040 114 - 30794189
UGCCACAACGUUGCGGUUGCAGUUGUUUUUAGCGAGUGUUCGUUGCAAAUGCUGCAAAUAAUGCUAAAAGUCUAAAAAGAACACGUCCAGCAACAACUUAGACGACGCGACGUC------
.......((((((((......(((.((((((((.((((((..(((((.....)))))..))))))....).))))))).))).((((.((......))..)))).)))))))).------ ( -33.50, z-score =  -1.18, R)
>droPer1.super_0 8621986 114 + 11822988
UGCCACAACGUUGCGGUUGCAGUUGUUUUUAGCGAGUGUUCGUUGCAAAUGCUGCAAAUAAUGCUAAAAGUCUAAAAAGAACACGUCCAGCAACAACUUAGACGACGCGACGUC------
.......((((((((......(((.((((((((.((((((..(((((.....)))))..))))))....).))))))).))).((((.((......))..)))).)))))))).------ ( -33.50, z-score =  -1.18, R)
>droWil1.scaffold_181130 5942282 110 - 16660200
UGCCACAACGUUGCGGUUGCAGUUGUUUUUAGCGAGUGUUCGUUGCAAAUGCUGCAAAUAAUGCUAAAAGUCUAAAAAGAACACGUCCAGCAACAACUUCGGU----UGGCGUC------
.(((.....(((((((.((..(((.((((((((.((((((..(((((.....)))))..))))))....).))))))).))).)).)).)))))(((....))----))))...------ ( -35.10, z-score =  -2.01, R)
>consensus
UGCCACAACGUUGCGGUUGCAGUUGUUUUUAGCGAGUGUUCGUUGCAAAUGCUGCAAAUAAUGCUAAAAGUCUAAAAAGAACACGUCCAGCAACAACUUAGACGACGCGACGUC______
.......((((((((......(((.((((((((.((((((..(((((.....)))))..))))))....).))))))).))).((((.((......))..)))).))))))))....... (-31.49 = -31.43 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 14,306,307 – 14,306,421
Length 114
Sequences 9
Columns 120
Reading direction reverse
Mean pairwise identity 97.11
Shannon entropy 0.06291
G+C content 0.44837
Mean single sequence MFE -33.81
Consensus MFE -32.36
Energy contribution -32.72
Covariance contribution 0.36
Combinations/Pair 1.06
Mean z-score -1.28
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.50
SVM RNA-class probability 0.721021
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14306307 114 - 27905053
------GACGUCGCGUCGUCUAAGUUGUUGCUGGACGUGUUCUUUUUAGACUUUUAGCAUUAUUUGCAGCAUUUGCAACGAACACUCGCUAAAAACAACUGCAACCGCAACGUUGUGGCA
------...((((((.(((...(((((((..(((..((((((..............(((.....))).((....))...))))))...)))..)))))))((....)).))).)))))). ( -33.40, z-score =  -1.13, R)
>droSim1.chr3R 20341428 114 + 27517382
------GACGUCGCGUCGUCUAAGUUGUUGCUGGACGUGUUCUUUUUAGACUUUUAGCAUUAUUUGCAGCAUUUGCAACGAACACUCGCUAAAAACAACUGCAACCGCAACGUUGUGGCA
------...((((((.(((...(((((((..(((..((((((..............(((.....))).((....))...))))))...)))..)))))))((....)).))).)))))). ( -33.40, z-score =  -1.13, R)
>droSec1.super_5 277547 114 + 5866729
------GACGUCGCGUCGUCUAAGUUGUUGCUGGACGUGUUCUUUUUAGACUUUUAGCAUUAUUUGCAGCAUUUGCAACGAACACUCGCUAAAAACAACUGCAACCGCAACGUUGUGGCA
------...((((((.(((...(((((((..(((..((((((..............(((.....))).((....))...))))))...)))..)))))))((....)).))).)))))). ( -33.40, z-score =  -1.13, R)
>droYak2.chr3R 2940422 114 - 28832112
------GACGUCGCGUCGUCUAAGUUGUUGCUGGACGUGUUCUUUUUAGACUUUUAGCAUUAUUUGCAGCAUUUGCAACGAACACUCGCUAAAAACAACUGCAACCGCAACGUUGUGGCA
------...((((((.(((...(((((((..(((..((((((..............(((.....))).((....))...))))))...)))..)))))))((....)).))).)))))). ( -33.40, z-score =  -1.13, R)
>droEre2.scaffold_4770 10414798 120 + 17746568
GACUGCGACGUCGCGUCGUCUAAGUUGUUGCUGGACGUGUUCUUUUUAGACUUUUAGCAUUAUUUGCAGCAUUUGCAACGAACACUCGCUAAAAACAACUGCAACCGCAACGUUGUGGCA
(.(..((((((.(((..((...(((((((..(((..((((((..............(((.....))).((....))...))))))...)))..)))))))...))))).))))))..)). ( -38.80, z-score =  -1.88, R)
>droAna3.scaffold_13340 13898164 114 + 23697760
------GACGUCGCGUCGUCUAAGUUGUUGCUGGACGUGUUCUUUUUAGACUUUUAGCAUUAUUUGCAGCAUUUGCAACGAACACUCGCUAAAAACAACUGCAACCGCAACGUUGUGGCA
------...((((((.(((...(((((((..(((..((((((..............(((.....))).((....))...))))))...)))..)))))))((....)).))).)))))). ( -33.40, z-score =  -1.13, R)
>dp4.chr2 18907040 114 + 30794189
------GACGUCGCGUCGUCUAAGUUGUUGCUGGACGUGUUCUUUUUAGACUUUUAGCAUUAUUUGCAGCAUUUGCAACGAACACUCGCUAAAAACAACUGCAACCGCAACGUUGUGGCA
------...((((((.(((...(((((((..(((..((((((..............(((.....))).((....))...))))))...)))..)))))))((....)).))).)))))). ( -33.40, z-score =  -1.13, R)
>droPer1.super_0 8621986 114 - 11822988
------GACGUCGCGUCGUCUAAGUUGUUGCUGGACGUGUUCUUUUUAGACUUUUAGCAUUAUUUGCAGCAUUUGCAACGAACACUCGCUAAAAACAACUGCAACCGCAACGUUGUGGCA
------...((((((.(((...(((((((..(((..((((((..............(((.....))).((....))...))))))...)))..)))))))((....)).))).)))))). ( -33.40, z-score =  -1.13, R)
>droWil1.scaffold_181130 5942282 110 + 16660200
------GACGCCA----ACCGAAGUUGUUGCUGGACGUGUUCUUUUUAGACUUUUAGCAUUAUUUGCAGCAUUUGCAACGAACACUCGCUAAAAACAACUGCAACCGCAACGUUGUGGCA
------...(((.----.....(((((((..(((..((((((..............(((.....))).((....))...))))))...)))..)))))))(((((......)))))))). ( -31.70, z-score =  -1.69, R)
>consensus
______GACGUCGCGUCGUCUAAGUUGUUGCUGGACGUGUUCUUUUUAGACUUUUAGCAUUAUUUGCAGCAUUUGCAACGAACACUCGCUAAAAACAACUGCAACCGCAACGUUGUGGCA
.........((((((.(((...(((((((..(((..((((((..............(((.....))).((....))...))))))...)))..)))))))((....)).))).)))))). (-32.36 = -32.72 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:25:21 2011