Locus 10180

Sequence ID dm3.chr3R
Location 11,946,250 – 11,946,358
Length 108
Max. P 0.991456
window13995 window13996

overview

Window 5

Location 11,946,250 – 11,946,358
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 98.06
Shannon entropy 0.03505
G+C content 0.52593
Mean single sequence MFE -31.12
Consensus MFE -30.18
Energy contribution -30.46
Covariance contribution 0.28
Combinations/Pair 1.04
Mean z-score -1.54
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.92
SVM RNA-class probability 0.852551
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11946250 108 + 27905053
GACCACAGACUGCUGCGAACCACUAAAGUCCACGGCGAGUCCACUCGACAAGUGGCGACACCGAUACGGACGCGAUCCUAAAUCUGAGUCUGUGGCUUAUUUGAAUAG
..(((((((((...(((..........(.((((..((((....))))....)))))....(((...))).)))(((.....)))..)))))))))............. ( -32.60, z-score =  -2.07, R)
>droYak2.chr3R 14344504 108 - 28832112
GACCAAAGACUGCUGCGAUCCACUAAAGUCCACGGCGAGUCCACUCGACAAGUGGCGACACCGAUGCGGACGCGAUCCUAAAUCUGAGUCUGUGGCUUAUUUGAAUAG
..(((.(((((...(((.(((........((((..((((....))))....))))((....))....))))))(((.....)))..))))).)))............. ( -28.10, z-score =  -0.28, R)
>droEre2.scaffold_4770 11470095 108 + 17746568
GACCAUAGACUGCUGCGAUCCACUAAAGUCCACGGCGAGUCCACACGACAAGUGGCGACACCGAUACGGACGCGAUCCUAAAUCUGAGUCUGUGGCUUAUUUGAAUAG
..(((((((((...(((.(((((....))...(((...(((..(((.....)))..))).)))....))))))(((.....)))..)))))))))............. ( -29.70, z-score =  -1.20, R)
>droSec1.super_0 11106901 108 - 21120651
GACCACAGACUGCUGCGAACCACUAAAGUCCACGGCGAGUCCACUCGACAAGUGGCGACACCGAUACGGACGCGAUCCUAAAUCUGAGUCUGUGGCUUAUUUGAAUAG
..(((((((((...(((..........(.((((..((((....))))....)))))....(((...))).)))(((.....)))..)))))))))............. ( -32.60, z-score =  -2.07, R)
>droSim1.chr3R 17986846 108 - 27517382
GACCACAGACUGCUGCGAACCACUAAAGUCCACGGCGAGUCCACUCGACAAGUGGCGACACCGAUACGGACGCGAUCCUAAAUCUGAGUCUGUGGCUUAUUUGAAUAG
..(((((((((...(((..........(.((((..((((....))))....)))))....(((...))).)))(((.....)))..)))))))))............. ( -32.60, z-score =  -2.07, R)
>consensus
GACCACAGACUGCUGCGAACCACUAAAGUCCACGGCGAGUCCACUCGACAAGUGGCGACACCGAUACGGACGCGAUCCUAAAUCUGAGUCUGUGGCUUAUUUGAAUAG
..(((((((((...(((..........(.((((..((((....))))....)))))....(((...))).)))(((.....)))..)))))))))............. (-30.18 = -30.46 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 11,946,250 – 11,946,358
Length 108
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 98.06
Shannon entropy 0.03505
G+C content 0.52593
Mean single sequence MFE -40.12
Consensus MFE -38.56
Energy contribution -39.56
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.82
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.48
SVM RNA-class probability 0.991456
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11946250 108 - 27905053
CUAUUCAAAUAAGCCACAGACUCAGAUUUAGGAUCGCGUCCGUAUCGGUGUCGCCACUUGUCGAGUGGACUCGCCGUGGACUUUAGUGGUUCGCAGCAGUCUGUGGUC
............(((((((((((.(((...((((...))))..)))((((...((((((...))))))...))))(((((((.....))))))).).)))))))))). ( -43.50, z-score =  -3.81, R)
>droYak2.chr3R 14344504 108 + 28832112
CUAUUCAAAUAAGCCACAGACUCAGAUUUAGGAUCGCGUCCGCAUCGGUGUCGCCACUUGUCGAGUGGACUCGCCGUGGACUUUAGUGGAUCGCAGCAGUCUUUGGUC
............((((.((((((.((((...))))((((((((..(((((...((((((...))))))...))))).........))))).))).).))))).)))). ( -36.40, z-score =  -1.70, R)
>droEre2.scaffold_4770 11470095 108 - 17746568
CUAUUCAAAUAAGCCACAGACUCAGAUUUAGGAUCGCGUCCGUAUCGGUGUCGCCACUUGUCGUGUGGACUCGCCGUGGACUUUAGUGGAUCGCAGCAGUCUAUGGUC
............((((.(((((..((((...))))(((((((...(((((...((((.......))))...))))))))))....(((...))).))))))).)))). ( -33.70, z-score =  -0.99, R)
>droSec1.super_0 11106901 108 + 21120651
CUAUUCAAAUAAGCCACAGACUCAGAUUUAGGAUCGCGUCCGUAUCGGUGUCGCCACUUGUCGAGUGGACUCGCCGUGGACUUUAGUGGUUCGCAGCAGUCUGUGGUC
............(((((((((((.(((...((((...))))..)))((((...((((((...))))))...))))(((((((.....))))))).).)))))))))). ( -43.50, z-score =  -3.81, R)
>droSim1.chr3R 17986846 108 + 27517382
CUAUUCAAAUAAGCCACAGACUCAGAUUUAGGAUCGCGUCCGUAUCGGUGUCGCCACUUGUCGAGUGGACUCGCCGUGGACUUUAGUGGUUCGCAGCAGUCUGUGGUC
............(((((((((((.(((...((((...))))..)))((((...((((((...))))))...))))(((((((.....))))))).).)))))))))). ( -43.50, z-score =  -3.81, R)
>consensus
CUAUUCAAAUAAGCCACAGACUCAGAUUUAGGAUCGCGUCCGUAUCGGUGUCGCCACUUGUCGAGUGGACUCGCCGUGGACUUUAGUGGUUCGCAGCAGUCUGUGGUC
............(((((((((((.(((...((((...))))..)))((((...((((((...))))))...))))(((((((.....))))))).).)))))))))). (-38.56 = -39.56 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:18:59 2011