Locus 14621

Sequence ID dm3.chrX
Location 14,422,146 – 14,422,297
Length 151
Max. P 0.943231
window20133 window20134

overview

Window 3

Location 14,422,146 – 14,422,297
Length 151
Sequences 4
Columns 154
Reading direction forward
Mean pairwise identity 97.38
Shannon entropy 0.04214
G+C content 0.46784
Mean single sequence MFE -41.29
Consensus MFE -38.83
Energy contribution -39.14
Covariance contribution 0.31
Combinations/Pair 1.02
Mean z-score -1.90
Structure conservation index 0.94
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.16
SVM RNA-class probability 0.902343
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14422146 151 + 22422827
AUAGGGGAUUACAGGGGACAAACUUUAUCUACAAAUCGUUUGCAUCGCAGAUCAGGUUUGUCCACACUUAGCCAAACUUUGGCCGCCUCAUCCGGAGUCCUUU---CUCCGGCAUUAUCCUUUUCCGGCACCUUGGUGACUUUUCACAUUUGCA
..(((((((...(((((((((((((.((((.(..............).)))).)))))))))).......((((.....))))..)))...((((((......---))))))....)))))))....(((.....((((....))))...))). ( -43.24, z-score =  -2.43, R)
>droSim1.chrX 11108203 151 + 17042790
AUAGGGGAUUACAGGGGACAAACUUUAUCUACAAAUCGUUUGCAUCGCAGAUCAGGUUUGUCCACACUUAGCCAAACUUUGGUCGCCUCAUCCGGAGUCCUUU---CUCCGGCAUUAUCCUUUUCCAGCACCUUGGUGACUUUUCACAUUUGCA
..(((((((...(((((((((((((.((((.(..............).)))).)))))))))).......((((.....))))..)))...((((((......---))))))....)))))))....(((.....((((....))))...))). ( -41.44, z-score =  -2.31, R)
>droSec1.super_20 1018347 151 + 1148123
AUAGGGGAUUACAGGGGACAAACUUUAUCUACAAAUCGUUUGCAUCGCAGAUCAGGUUUGUCCACACUUAGCCAAACUUUGGCCGCCUCAUCCGGAGUCCUUU---CUCCGGCAUUAUCCUUUUCCGGCACCUUGGUGACUUUUCACAUUUGCA
..(((((((...(((((((((((((.((((.(..............).)))).)))))))))).......((((.....))))..)))...((((((......---))))))....)))))))....(((.....((((....))))...))). ( -43.24, z-score =  -2.43, R)
>droYak2.chrX 8663061 154 + 21770863
AUAGGGGAUUACAGGGGACAAACUUUACCUACAAAUCGUUUGCAUCGCAGAUCAGGUUUGUCCACACUUAGCCAAACUUUAGCCGCCUCAUCCGGAGUCCUUCUUGCUCCGGCAUUAUCCUUUUCCGGCACCUUGGUGACUUUUCACAUUUGCA
..(((((.(((.((.((((((((((............((((((...)))))).))))))))))...)))))))........((((......(((((((.......))))))).............)))).)))..((((....))))....... ( -37.23, z-score =  -0.44, R)
>consensus
AUAGGGGAUUACAGGGGACAAACUUUAUCUACAAAUCGUUUGCAUCGCAGAUCAGGUUUGUCCACACUUAGCCAAACUUUGGCCGCCUCAUCCGGAGUCCUUU___CUCCGGCAUUAUCCUUUUCCGGCACCUUGGUGACUUUUCACAUUUGCA
..(((((((...(((((((((((((.((((.(..............).)))).)))))))))).......((((.....))))..)))...((((((.........))))))....)))))))....(((.....((((....))))...))). (-38.83 = -39.14 +   0.31)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,422,146 – 14,422,297
Length 151
Sequences 4
Columns 154
Reading direction reverse
Mean pairwise identity 97.38
Shannon entropy 0.04214
G+C content 0.46784
Mean single sequence MFE -45.08
Consensus MFE -43.22
Energy contribution -43.10
Covariance contribution -0.12
Combinations/Pair 1.05
Mean z-score -1.98
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.49
SVM RNA-class probability 0.943231
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14422146 151 - 22422827
UGCAAAUGUGAAAAGUCACCAAGGUGCCGGAAAAGGAUAAUGCCGGAG---AAAGGACUCCGGAUGAGGCGGCCAAAGUUUGGCUAAGUGUGGACAAACCUGAUCUGCGAUGCAAACGAUUUGUAGAUAAAGUUUGUCCCCUGUAAUCCCCUAU
.(((...((((....)))).....))).((....((((....((((((---......))))))...(((.(((((.....)))))......((((((((...((((((((..........))))))))...)))))))))))...))))))... ( -47.00, z-score =  -2.56, R)
>droSim1.chrX 11108203 151 - 17042790
UGCAAAUGUGAAAAGUCACCAAGGUGCUGGAAAAGGAUAAUGCCGGAG---AAAGGACUCCGGAUGAGGCGACCAAAGUUUGGCUAAGUGUGGACAAACCUGAUCUGCGAUGCAAACGAUUUGUAGAUAAAGUUUGUCCCCUGUAAUCCCCUAU
.(((...((((....)))).....))).......((((....((((((---......))))))...(((.(.(((.....)))).......((((((((...((((((((..........))))))))...)))))))))))...))))..... ( -42.30, z-score =  -1.80, R)
>droSec1.super_20 1018347 151 - 1148123
UGCAAAUGUGAAAAGUCACCAAGGUGCCGGAAAAGGAUAAUGCCGGAG---AAAGGACUCCGGAUGAGGCGGCCAAAGUUUGGCUAAGUGUGGACAAACCUGAUCUGCGAUGCAAACGAUUUGUAGAUAAAGUUUGUCCCCUGUAAUCCCCUAU
.(((...((((....)))).....))).((....((((....((((((---......))))))...(((.(((((.....)))))......((((((((...((((((((..........))))))))...)))))))))))...))))))... ( -47.00, z-score =  -2.56, R)
>droYak2.chrX 8663061 154 - 21770863
UGCAAAUGUGAAAAGUCACCAAGGUGCCGGAAAAGGAUAAUGCCGGAGCAAGAAGGACUCCGGAUGAGGCGGCUAAAGUUUGGCUAAGUGUGGACAAACCUGAUCUGCGAUGCAAACGAUUUGUAGGUAAAGUUUGUCCCCUGUAAUCCCCUAU
.(((...((((....)))).....))).((....((((....(((((((......).))))))...(((.(((((.....)))))......((((((((...((((((((..........))))))))...)))))))))))...))))))... ( -44.00, z-score =  -1.00, R)
>consensus
UGCAAAUGUGAAAAGUCACCAAGGUGCCGGAAAAGGAUAAUGCCGGAG___AAAGGACUCCGGAUGAGGCGGCCAAAGUUUGGCUAAGUGUGGACAAACCUGAUCUGCGAUGCAAACGAUUUGUAGAUAAAGUUUGUCCCCUGUAAUCCCCUAU
.(((...((((....)))).....))).((....((((....((((((.........))))))...(((.(((((.....)))))......((((((((...((((((((..........))))))))...)))))))))))...))))))... (-43.22 = -43.10 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:43:38 2011