Locus 2430

Sequence ID dm3.chr2L
Location 18,955,313 – 18,955,379
Length 66
Max. P 0.996916
window3343 window3344

overview

Window 3

Location 18,955,313 – 18,955,379
Length 66
Sequences 3
Columns 66
Reading direction forward
Mean pairwise identity 88.83
Shannon entropy 0.15305
G+C content 0.44102
Mean single sequence MFE -19.71
Consensus MFE -16.75
Energy contribution -17.20
Covariance contribution 0.45
Combinations/Pair 1.06
Mean z-score -2.63
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.98
SVM RNA-class probability 0.977739
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 18955313 66 + 23011544
GAAUAGAAGGGCAUACCCUUCUCUAUAAAGUACCUUGCGUACCAGAAGGCGUUUGCCUUGGUACAU
....(((((((....)))))))................((((((..((((....)))))))))).. ( -23.00, z-score =  -3.36, R)
>droSim1.chr2L 18648351 64 + 22036055
-GAUAGAAGGGUAUACCCUUCUCCAUAAGGUACCUUGCAUACCAGAAGGCAUUUGCCUUGGUACA-
-...(((((((....)))))))...((((....))))..(((((..((((....)))))))))..- ( -22.20, z-score =  -2.84, R)
>droSec1.super_7 2584616 65 + 3727775
GAAUAGAAGGGCAUACCCUUCUCUAUAAAAUACCUUGCAUACCAGAAGUCAUUUGCCUCGGUACA-
....(((((((....)))))))........((((..(((..............)))...))))..- ( -13.94, z-score =  -1.68, R)
>consensus
GAAUAGAAGGGCAUACCCUUCUCUAUAAAGUACCUUGCAUACCAGAAGGCAUUUGCCUUGGUACA_
....(((((((....))))))).......(((((..(((..((....))....)))...))))).. (-16.75 = -17.20 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 18,955,313 – 18,955,379
Length 66
Sequences 3
Columns 66
Reading direction reverse
Mean pairwise identity 88.83
Shannon entropy 0.15305
G+C content 0.44102
Mean single sequence MFE -23.00
Consensus MFE -21.34
Energy contribution -21.23
Covariance contribution -0.11
Combinations/Pair 1.12
Mean z-score -3.16
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.01
SVM RNA-class probability 0.996916
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 18955313 66 - 23011544
AUGUACCAAGGCAAACGCCUUCUGGUACGCAAGGUACUUUAUAGAGAAGGGUAUGCCCUUCUAUUC
..((((((((((....))))..))))))................(((((((....))))))).... ( -25.00, z-score =  -3.88, R)
>droSim1.chr2L 18648351 64 - 22036055
-UGUACCAAGGCAAAUGCCUUCUGGUAUGCAAGGUACCUUAUGGAGAAGGGUAUACCCUUCUAUC-
-.(((((...(((..((((....)))))))..))))).......(((((((....)))))))...- ( -24.50, z-score =  -3.27, R)
>droSec1.super_7 2584616 65 - 3727775
-UGUACCGAGGCAAAUGACUUCUGGUAUGCAAGGUAUUUUAUAGAGAAGGGUAUGCCCUUCUAUUC
-.(((((...(((....((.....)).)))..))))).......(((((((....))))))).... ( -19.50, z-score =  -2.32, R)
>consensus
_UGUACCAAGGCAAAUGCCUUCUGGUAUGCAAGGUACUUUAUAGAGAAGGGUAUGCCCUUCUAUUC
..((((((((((....))))..))))))................(((((((....))))))).... (-21.34 = -21.23 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:51:04 2011