Locus 13173

Sequence ID dm3.chrX
Location 4,816,467 – 4,816,572
Length 105
Max. P 0.999158
window18103 window18104

overview

Window 3

Location 4,816,467 – 4,816,572
Length 105
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 77.67
Shannon entropy 0.31733
G+C content 0.60321
Mean single sequence MFE -46.83
Consensus MFE -32.86
Energy contribution -34.87
Covariance contribution 2.00
Combinations/Pair 1.10
Mean z-score -3.86
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.65
SVM RNA-class probability 0.999108
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4816467 105 + 22422827
ACAAGUCCCUCC-UUCCGCUCGACAGACGCUGGAAAAUCAAAGCCAGCGGAAGUGACUUCCGGCGGUUAAGAUUUUCCAGCGCCUGUGAAGCGCCGGGAGCGAACU
...(((.(((((-(..((((..((((.((((((((((((..((((..((((((...))))))..))))..)))))))))))).))))..))))..))))).).))) ( -53.00, z-score =  -5.83, R)
>droSim1.chrX 3726739 88 + 17042790
ACAAGUCCCUCCCUUCUGCUCGACCGAAGCCGGAGCAUCGAAGCCGGCGGAAGUAGCUUCCGGCGGUUAAGAAACUCCAGCGCCGGUG------------------
......................((((..((.((((..((..(((((.((((((...)))))).)))))..))..)))).))..)))).------------------ ( -34.40, z-score =  -1.56, R)
>droSec1.super_4 4251128 106 - 6179234
ACAAGUCCCUCCCUUCUGCUCGACCGAAGCCGGAGCAUCGAAGCCGGCGGAAGUAGCUUCCGGCGGUUAAGAAACUCCAGCGCCGGUGAAGCGGAAGGAGCGAGAU
....((((((((.(((((((..((((..((.((((..((..(((((.((((((...)))))).)))))..))..)))).))..))))..))))))))))).).))) ( -53.10, z-score =  -4.19, R)
>consensus
ACAAGUCCCUCCCUUCUGCUCGACCGAAGCCGGAGCAUCGAAGCCGGCGGAAGUAGCUUCCGGCGGUUAAGAAACUCCAGCGCCGGUGAAGCG___GGAGCGA__U
........((((....((((..((((..((.((((..((..(((((.((((((...)))))).)))))..))..)))).))..))))..))))...))))...... (-32.86 = -34.87 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 4,816,467 – 4,816,572
Length 105
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 77.67
Shannon entropy 0.31733
G+C content 0.60321
Mean single sequence MFE -49.97
Consensus MFE -38.20
Energy contribution -39.77
Covariance contribution 1.56
Combinations/Pair 1.14
Mean z-score -3.81
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.68
SVM RNA-class probability 0.999158
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4816467 105 - 22422827
AGUUCGCUCCCGGCGCUUCACAGGCGCUGGAAAAUCUUAACCGCCGGAAGUCACUUCCGCUGGCUUUGAUUUUCCAGCGUCUGUCGAGCGGAA-GGAGGGACUUGU
(((((.((((...(((((.(((((((((((((((((..(.(((.((((((...)))))).))).)..))))))))))))))))).)))))...-)))))))))... ( -59.40, z-score =  -6.55, R)
>droSim1.chrX 3726739 88 - 17042790
------------------CACCGGCGCUGGAGUUUCUUAACCGCCGGAAGCUACUUCCGCCGGCUUCGAUGCUCCGGCUUCGGUCGAGCAGAAGGGAGGGACUUGU
------------------..((((((..(((((((((........))))))).))..))))))((((..(((((.(((....))))))))....))))........ ( -36.10, z-score =  -0.77, R)
>droSec1.super_4 4251128 106 + 6179234
AUCUCGCUCCUUCCGCUUCACCGGCGCUGGAGUUUCUUAACCGCCGGAAGCUACUUCCGCCGGCUUCGAUGCUCCGGCUUCGGUCGAGCAGAAGGGAGGGACUUGU
.((((..((((((.((((.(((((.((((((((.((..(.(((.((((((...)))))).))).)..)).)))))))).))))).)))).)))))).))))..... ( -54.40, z-score =  -4.12, R)
>consensus
A__UCGCUCC___CGCUUCACCGGCGCUGGAGUUUCUUAACCGCCGGAAGCUACUUCCGCCGGCUUCGAUGCUCCGGCUUCGGUCGAGCAGAAGGGAGGGACUUGU
...((.((((....((((.(((((.((((((((.((..(.(((.((((((...)))))).))).)..)).)))))))).))))).)))).....)))).))..... (-38.20 = -39.77 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:15:58 2011