Locus 15912

Sequence ID dm3.chrYHet
Location 308,010 – 308,079
Length 69
Max. P 0.971092
window21924 window21925

overview

Window 4

Location 308,010 – 308,079
Length 69
Sequences 3
Columns 70
Reading direction forward
Mean pairwise identity 65.66
Shannon entropy 0.44603
G+C content 0.53507
Mean single sequence MFE -22.87
Consensus MFE -13.51
Energy contribution -13.73
Covariance contribution 0.23
Combinations/Pair 1.18
Mean z-score -2.13
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.84
SVM RNA-class probability 0.971092
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrYHet 308010 69 + 347038
GAGCUGUUCGCUGUAGCGCUCUUCGCUCUCUCGCU-UUCUAACAAAAAUUCGAGAGAGCCUGGAGCCACC
..((((.......))))(((((..(((((((((..-((........))..)))))))))..))))).... ( -26.60, z-score =  -2.89, R)
>dp4.chrXL_group3b 319160 58 - 386183
-----GAGCGCGGUGGCUUUCCGAGCUCUCUCGUGGCUUUCAAAAAAGUUUCAGAGAGCCAAC-------
-----((((.(((.......))).)))).....((((((((............))))))))..------- ( -21.00, z-score =  -1.76, R)
>droPer1.super_56 343783 58 - 431378
-----GAGCGCGGUGGCUUUCCGAGCUCUCUCGUGGCUUUCAAAAAAGUUUCAGAGAGCCAAC-------
-----((((.(((.......))).)))).....((((((((............))))))))..------- ( -21.00, z-score =  -1.76, R)
>consensus
_____GAGCGCGGUGGCUUUCCGAGCUCUCUCGUGGCUUUCAAAAAAGUUUCAGAGAGCCAAC_______
.....((((......)))).....(((((((...((((((....))))))..)))))))........... (-13.51 = -13.73 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 308,010 – 308,079
Length 69
Sequences 3
Columns 70
Reading direction reverse
Mean pairwise identity 65.66
Shannon entropy 0.44603
G+C content 0.53507
Mean single sequence MFE -21.60
Consensus MFE -12.36
Energy contribution -11.70
Covariance contribution -0.66
Combinations/Pair 1.15
Mean z-score -1.55
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.61
SVM RNA-class probability 0.761530
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrYHet 308010 69 - 347038
GGUGGCUCCAGGCUCUCUCGAAUUUUUGUUAGAA-AGCGAGAGAGCGAAGAGCGCUACAGCGAACAGCUC
(.((((((...(((((((((..((((....))))-..)))))))))...))))((....))...)).).. ( -27.20, z-score =  -1.99, R)
>dp4.chrXL_group3b 319160 58 + 386183
-------GUUGGCUCUCUGAAACUUUUUUGAAAGCCACGAGAGAGCUCGGAAAGCCACCGCGCUC-----
-------(.(((((.(((((..((((((((.......)))))))).))))).))))).)......----- ( -18.80, z-score =  -1.33, R)
>droPer1.super_56 343783 58 + 431378
-------GUUGGCUCUCUGAAACUUUUUUGAAAGCCACGAGAGAGCUCGGAAAGCCACCGCGCUC-----
-------(.(((((.(((((..((((((((.......)))))))).))))).))))).)......----- ( -18.80, z-score =  -1.33, R)
>consensus
_______GUUGGCUCUCUGAAACUUUUUUGAAAGCCACGAGAGAGCUCGGAAAGCCACCGCGCUC_____
...........(((((((....((((....)))).....))))))).......((....))......... (-12.36 = -11.70 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:08:11 2011