Locus 15898

Sequence ID dm3.chrX
Location 22,272,534 – 22,272,594
Length 60
Max. P 0.664689
window21902 window21903

overview

Window 2

Location 22,272,534 – 22,272,594
Length 60
Sequences 3
Columns 60
Reading direction forward
Mean pairwise identity 97.78
Shannon entropy 0.03061
G+C content 0.43333
Mean single sequence MFE -15.20
Consensus MFE -14.07
Energy contribution -14.40
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.664689
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 22272534 60 + 22422827
UUAGUAUGUUGCAGUUGGAGUCGAUGAUAAGGCCUUAUCGAUAGAUACAGCGAUAGGGUG
......((((((.((....((((((((.......))))))))....)).))))))..... ( -13.60, z-score =  -1.23, R)
>droSim1.chrX 17018128 60 + 17042790
UUAGUAUGUUGCAGUUGGAGUCGAUGAUAAGGCCUUAUCUAUCGAUACAGCGAUAGGGUG
....(((.(((..((((..(((((((((((....))))).)))))).))))..))).))) ( -16.00, z-score =  -1.66, R)
>droSec1.super_39 231133 60 + 341166
UUAGUAUGUUGCAGUUGGAGUCGAUGAUAAGGCCUUAUCUAUCGAUACAGCGAUAGGGUG
....(((.(((..((((..(((((((((((....))))).)))))).))))..))).))) ( -16.00, z-score =  -1.66, R)
>consensus
UUAGUAUGUUGCAGUUGGAGUCGAUGAUAAGGCCUUAUCUAUCGAUACAGCGAUAGGGUG
....(((.(((..((((..(((((((((((....))))).)))))).))))..))).))) (-14.07 = -14.40 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 22,272,534 – 22,272,594
Length 60
Sequences 3
Columns 60
Reading direction reverse
Mean pairwise identity 97.78
Shannon entropy 0.03061
G+C content 0.43333
Mean single sequence MFE -8.30
Consensus MFE -7.77
Energy contribution -8.10
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.37
Structure conservation index 0.94
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.26
SVM RNA-class probability 0.617002
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 22272534 60 - 22422827
CACCCUAUCGCUGUAUCUAUCGAUAAGGCCUUAUCAUCGACUCCAACUGCAACAUACUAA
.........(((.((((....)))).)))............................... (  -5.50, z-score =  -0.46, R)
>droSim1.chrX 17018128 60 - 17042790
CACCCUAUCGCUGUAUCGAUAGAUAAGGCCUUAUCAUCGACUCCAACUGCAACAUACUAA
.........((.((.(((((.(((((....)))))))))).....)).)).......... (  -9.70, z-score =  -1.83, R)
>droSec1.super_39 231133 60 - 341166
CACCCUAUCGCUGUAUCGAUAGAUAAGGCCUUAUCAUCGACUCCAACUGCAACAUACUAA
.........((.((.(((((.(((((....)))))))))).....)).)).......... (  -9.70, z-score =  -1.83, R)
>consensus
CACCCUAUCGCUGUAUCGAUAGAUAAGGCCUUAUCAUCGACUCCAACUGCAACAUACUAA
.........((.((.(((((.(((((....)))))))))).....)).)).......... ( -7.77 =  -8.10 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:07:54 2011