Locus 2915

Sequence ID dm3.chr2RHet
Location 2,165,457 – 2,165,563
Length 106
Max. P 0.997131
window4011 window4012

overview

Window 1

Location 2,165,457 – 2,165,563
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 59.75
Shannon entropy 0.56619
G+C content 0.57547
Mean single sequence MFE -44.60
Consensus MFE -19.00
Energy contribution -18.97
Covariance contribution -0.04
Combinations/Pair 1.50
Mean z-score -2.72
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.75
SVM RNA-class probability 0.994984
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 2165457 106 + 3288761
CCUGGUUAUACCAGGGUUCCUGUACCAGGGCUAGCCCAAGAUGUUGCUUGGUGAACAUCCUUGCCAGCACGGCCGAGGCCGCCUUGGCGCGAUGGAUGUUCACCUG
(((((.....)))))............(((....)))............(((((((((((.((((((..((((....))))..))))))....))))))))))).. ( -49.20, z-score =  -3.46, R)
>droYak2.chrU 16962128 106 - 28119190
CCGAGGCAAUCCAUGGCUCUUGGACCAAAGCUAUGUCGGCGGACCCUUGCUCCAGGGCGAUGAGGAGUUCCGCCGACGCGAUCUUGCUUUUAUAAAGAUUGAGCUG
(((((((........)).))))).....((((..(((((((((((((((((....)))...)))).).))))))))).(((((((.........))))))))))). ( -43.50, z-score =  -3.08, R)
>dp4.Unknown_group_70 2267 106 + 32930
CAGUCGCAAUCCAGGGCUCCUGGACUAGAGCUAUGUCGGCGAGUCCUUGCUCCAUGGCGAUGAGGAGCUCCGCCGACGCUACCUUGCUUUUAUGCAAGUUGAGCUG
.(((.....((((((...)))))).....)))..(((((((((((((((((....)))...))))).)).)))))))(((..(((((......)))))...))).. ( -41.10, z-score =  -1.61, R)
>consensus
CCGAGGCAAUCCAGGGCUCCUGGACCAGAGCUAUGUCGGCGAGUCCUUGCUCCAAGGCGAUGAGGAGCUCCGCCGACGCCACCUUGCUUUUAUGAAAGUUGAGCUG
....((((......(((((........)))))..(((((((((((((((((....)))...)))).))).))))))).......)))).................. (-19.00 = -18.97 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 2,165,457 – 2,165,563
Length 106
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 59.75
Shannon entropy 0.56619
G+C content 0.57547
Mean single sequence MFE -42.70
Consensus MFE -21.68
Energy contribution -18.82
Covariance contribution -2.86
Combinations/Pair 1.55
Mean z-score -2.52
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.04
SVM RNA-class probability 0.997131
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 2165457 106 - 3288761
CAGGUGAACAUCCAUCGCGCCAAGGCGGCCUCGGCCGUGCUGGCAAGGAUGUUCACCAAGCAACAUCUUGGGCUAGCCCUGGUACAGGAACCCUGGUAUAACCAGG
..(((((((((((.....((((..(((((....)))))..))))..)))))))))))........(((((..(((....)))..)))))..(((((.....))))) ( -51.70, z-score =  -4.36, R)
>droYak2.chrU 16962128 106 + 28119190
CAGCUCAAUCUUUAUAAAAGCAAGAUCGCGUCGGCGGAACUCCUCAUCGCCCUGGAGCAAGGGUCCGCCGACAUAGCUUUGGUCCAAGAGCCAUGGAUUGCCUCGG
.....((((((........((......))(((((((((.(.(((..((......))...)))))))))))))...(((((......)))))...))))))...... ( -32.80, z-score =  -0.42, R)
>dp4.Unknown_group_70 2267 106 - 32930
CAGCUCAACUUGCAUAAAAGCAAGGUAGCGUCGGCGGAGCUCCUCAUCGCCAUGGAGCAAGGACUCGCCGACAUAGCUCUAGUCCAGGAGCCCUGGAUUGCGACUG
..(((...(((((......)))))..)))(((((((.((.((((..((......))...))))))))))))).(((.(((((((((((...))))))))).))))) ( -43.60, z-score =  -2.78, R)
>consensus
CAGCUCAACAUCCAUAAAAGCAAGGUAGCGUCGGCGGAGCUCCUCAUCGCCAUGGAGCAAGGACACGCCGACAUAGCUCUGGUCCAGGAGCCCUGGAUUGCCACGG
..(((.............)))..((.(((((((((.(((.((((...(.(....).)..)))))))))))))...)))))((((((((...))))))))....... (-21.68 = -18.82 +  -2.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:00:19 2011