Locus 10643

Sequence ID dm3.chr3R
Location 15,342,802 – 15,342,902
Length 100
Max. P 0.600357
window14636 window14637

overview

Window 6

Location 15,342,802 – 15,342,902
Length 100
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 83.66
Shannon entropy 0.30572
G+C content 0.51924
Mean single sequence MFE -32.53
Consensus MFE -21.99
Energy contribution -22.28
Covariance contribution 0.30
Combinations/Pair 1.17
Mean z-score -1.61
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.560582
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15342802 100 + 27905053
GUGACUUGCGAACGAAAGUCCACAGCUGACUGCAGC------UGAAUAUCGAGUGGCGAGUGUGGGUGAUUCCACUUUUAGUCUCUGGCCAAUGGCCAUUUAUUGG
((.(((((.(.((....)).).((((((....))))------)).....))))).))((.((..((((....))))..)).))..(((((...)))))........ ( -32.80, z-score =  -1.59, R)
>droSim1.chr3R 21386309 100 - 27517382
GUGACUUGCGAACGAAAGUCCCCAGCUGACUGCAGC------UGAAUAUCGAGUGGCGAGUGUGGGUGAUCCCACUUUUAGUCUCUGGCCAAUGGCCAUUUAUUGG
((.(((((.(.((....)).).((((((....))))------)).....))))).))(((.(((((....))))).......)))(((((...)))))........ ( -33.70, z-score =  -1.81, R)
>droSec1.super_25 394345 100 - 827797
GUGACUUGCGAACGAAAGUCCCCAGCUGACUGCAGC------UGAAUAUCGAGUGGCGAGUGUGGGUGAUCCCACUUUUAGUCUCUGGCCAAUGGCCAUUUAUUGG
((.(((((.(.((....)).).((((((....))))------)).....))))).))(((.(((((....))))).......)))(((((...)))))........ ( -33.70, z-score =  -1.81, R)
>droYak2.chr3R 4082396 106 + 28832112
GUGACUUGCGAGAGAAAGUCCCCAGCUGACUGCAAUGAGUGGCGAAAAUCGAGUGGCGAGUGUGGGUGAUCCCACUUUUAGUCUCUGGCCAAUGGCCAUUUAUUGG
..(((((.(....).)))))..(((....)))(((((((((((.(....(.((.(((....(((((....))))).....))).)).)....).))))))))))). ( -36.10, z-score =  -1.81, R)
>droEre2.scaffold_4770 11447602 100 - 17746568
GUGACUUGCGAGCGAAAGUCCCCAGCUGACUGCAGC------UGAAAAUCGAGUGUCGAGUGUGGGUGAUCCCACUUUUAGUCUCUGGCCAAUGGCCAUUUAUUGG
..(((...(((((....))...((((((....))))------))....)))...)))(((.(((((....))))).......)))(((((...)))))........ ( -33.30, z-score =  -1.82, R)
>droAna3.scaffold_13340 8639874 82 - 23697760
AUGACUUGCCGGCUGUGGUCCCCAGAUGACUGCAGC--------AGAAUCC--UUACGAGUGU--------------UCGGUCCUUGGCCAAUGGCCAUUUAUUGG
.......(((.((((..(((.......)))..))))--------.(((..(--(....))..)--------------)))))...(((((...)))))........ ( -25.60, z-score =  -0.82, R)
>consensus
GUGACUUGCGAACGAAAGUCCCCAGCUGACUGCAGC______UGAAAAUCGAGUGGCGAGUGUGGGUGAUCCCACUUUUAGUCUCUGGCCAAUGGCCAUUUAUUGG
..(((((........))))).((((..(((((................(((.....)))..(((((....)))))...))))).))))(((((((....))))))) (-21.99 = -22.28 +   0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 15,342,802 – 15,342,902
Length 100
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 83.66
Shannon entropy 0.30572
G+C content 0.51924
Mean single sequence MFE -29.43
Consensus MFE -19.81
Energy contribution -20.47
Covariance contribution 0.65
Combinations/Pair 1.05
Mean z-score -1.69
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.22
SVM RNA-class probability 0.600357
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15342802 100 - 27905053
CCAAUAAAUGGCCAUUGGCCAGAGACUAAAAGUGGAAUCACCCACACUCGCCACUCGAUAUUCA------GCUGCAGUCAGCUGUGGACUUUCGUUCGCAAGUCAC
........(((((...)))))..((((....((((......))))....((...........((------((((....)))))).((((....)))))).)))).. ( -28.90, z-score =  -2.01, R)
>droSim1.chr3R 21386309 100 + 27517382
CCAAUAAAUGGCCAUUGGCCAGAGACUAAAAGUGGGAUCACCCACACUCGCCACUCGAUAUUCA------GCUGCAGUCAGCUGGGGACUUUCGUUCGCAAGUCAC
........(((((...)))))..((((....(((((....)))))....((....(((..((((------((((....)))))))).....)))...)).)))).. ( -33.40, z-score =  -2.69, R)
>droSec1.super_25 394345 100 + 827797
CCAAUAAAUGGCCAUUGGCCAGAGACUAAAAGUGGGAUCACCCACACUCGCCACUCGAUAUUCA------GCUGCAGUCAGCUGGGGACUUUCGUUCGCAAGUCAC
........(((((...)))))..((((....(((((....)))))....((....(((..((((------((((....)))))))).....)))...)).)))).. ( -33.40, z-score =  -2.69, R)
>droYak2.chr3R 4082396 106 - 28832112
CCAAUAAAUGGCCAUUGGCCAGAGACUAAAAGUGGGAUCACCCACACUCGCCACUCGAUUUUCGCCACUCAUUGCAGUCAGCUGGGGACUUUCUCUCGCAAGUCAC
........(((((...)))))..((((....(((((....)))))..((.(((((.((((...((........)))))))).))).))............)))).. ( -27.50, z-score =  -0.74, R)
>droEre2.scaffold_4770 11447602 100 + 17746568
CCAAUAAAUGGCCAUUGGCCAGAGACUAAAAGUGGGAUCACCCACACUCGACACUCGAUUUUCA------GCUGCAGUCAGCUGGGGACUUUCGCUCGCAAGUCAC
........(((((...)))))..((((....(((((....)))))...(((....(((((..((------((((....))))))..))...))).)))..)))).. ( -33.20, z-score =  -2.67, R)
>droAna3.scaffold_13340 8639874 82 + 23697760
CCAAUAAAUGGCCAUUGGCCAAGGACCGA--------------ACACUCGUAA--GGAUUCU--------GCUGCAGUCAUCUGGGGACCACAGCCGGCAAGUCAU
.......(((((.....(((.((((((..--------------((....))..--)).))))--------((((..(((.......)))..)))).)))..))))) ( -20.20, z-score =   0.67, R)
>consensus
CCAAUAAAUGGCCAUUGGCCAGAGACUAAAAGUGGGAUCACCCACACUCGCCACUCGAUAUUCA______GCUGCAGUCAGCUGGGGACUUUCGCUCGCAAGUCAC
........(((((...)))))..((((....(((((....)))))..........................((.(((....))).)).............)))).. (-19.81 = -20.47 +   0.65)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:27:51 2011