Locus 1923

Sequence ID dm3.chr2L
Location 14,783,348 – 14,783,469
Length 121
Max. P 0.967769
window2654 window2655

overview

Window 4

Location 14,783,348 – 14,783,469
Length 121
Sequences 3
Columns 121
Reading direction forward
Mean pairwise identity 90.11
Shannon entropy 0.13453
G+C content 0.41497
Mean single sequence MFE -29.87
Consensus MFE -25.82
Energy contribution -26.27
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -1.54
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.21
SVM RNA-class probability 0.596690
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14783348 121 + 23011544
GUUGAAAUAUAAAAGUAUCCUCCAGGAUACCACUCGGGACUAUAGUUCCAAUCCCAAUGCGAUCCAUGAUUGGUGUCAUAAUCAUAGUCUUGGAAAGUCUGUUUUGGAAUCCGAGUAGUAU
..............((((((....)))))).((((((.......(((((((..(....((..((((.(((((((......))))..))).))))..))..)..)))))))))))))..... ( -31.91, z-score =  -1.83, R)
>droSim1.chr2L 14533609 112 + 22036055
GUUGAAAUAUAAAAGUAUCCUCCAGGAUACCACUCGGGACUGUAGUUCCAAUCCCAAUGCGAUCCAUGAUUGGUGUCGUAAUCGUAGUCUUGGUAAGUCUGUUUUGGAGUUU---------
...................((((((((((..(((.(((((....)))))....((((((((((..(((((....))))).))))))...))))..))).))))))))))...--------- ( -28.60, z-score =  -1.43, R)
>droSec1.super_3 1060402 112 + 7220098
GUUGAAAUAUAAAAGUAGCCUCCAGGAUACCACUCGGGACUGUAGUUCCAAUCCCAAUGCGAUCCAUGAUUGGUGUCGUAAUCGUAGUCUUGGAAAGUCUGUUUUGGAGUAU---------
...................((((((((((..(((.(((((....)))))....((((((((((..(((((....))))).))))))...))))..))).))))))))))...--------- ( -29.10, z-score =  -1.36, R)
>consensus
GUUGAAAUAUAAAAGUAUCCUCCAGGAUACCACUCGGGACUGUAGUUCCAAUCCCAAUGCGAUCCAUGAUUGGUGUCGUAAUCGUAGUCUUGGAAAGUCUGUUUUGGAGUAU_________
...................((((((((((..(((.(((((....)))))....((((((((((..(((((....))))).))))))...))))..))).))))))))))............ (-25.82 = -26.27 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,783,348 – 14,783,469
Length 121
Sequences 3
Columns 121
Reading direction reverse
Mean pairwise identity 90.11
Shannon entropy 0.13453
G+C content 0.41497
Mean single sequence MFE -29.82
Consensus MFE -27.37
Energy contribution -26.93
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -2.18
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.79
SVM RNA-class probability 0.967769
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14783348 121 - 23011544
AUACUACUCGGAUUCCAAAACAGACUUUCCAAGACUAUGAUUAUGACACCAAUCAUGGAUCGCAUUGGGAUUGGAACUAUAGUCCCGAGUGGUAUCCUGGAGGAUACUUUUAUAUUUCAAC
.(((((((((((...............)))..((((((((((........)))))))).)).....(((((((......)))))))))))))))(((....)))................. ( -32.06, z-score =  -1.92, R)
>droSim1.chr2L 14533609 112 - 22036055
---------AAACUCCAAAACAGACUUACCAAGACUACGAUUACGACACCAAUCAUGGAUCGCAUUGGGAUUGGAACUACAGUCCCGAGUGGUAUCCUGGAGGAUACUUUUAUAUUUCAAC
---------...(((((.................(((.((((........)))).)))(((((.(((((((((......))))))))))))))....)))))................... ( -28.70, z-score =  -2.41, R)
>droSec1.super_3 1060402 112 - 7220098
---------AUACUCCAAAACAGACUUUCCAAGACUACGAUUACGACACCAAUCAUGGAUCGCAUUGGGAUUGGAACUACAGUCCCGAGUGGUAUCCUGGAGGCUACUUUUAUAUUUCAAC
---------...(((((.................(((.((((........)))).)))(((((.(((((((((......))))))))))))))....)))))................... ( -28.70, z-score =  -2.21, R)
>consensus
_________AAACUCCAAAACAGACUUUCCAAGACUACGAUUACGACACCAAUCAUGGAUCGCAUUGGGAUUGGAACUACAGUCCCGAGUGGUAUCCUGGAGGAUACUUUUAUAUUUCAAC
............(((((.................(((.((((........)))).)))(((((.(((((((((......))))))))))))))....)))))................... (-27.37 = -26.93 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:41:30 2011