Locus 1272

Sequence ID dm3.chr2L
Location 9,674,793 – 9,674,894
Length 101
Max. P 0.962332
window1733 window1734

overview

Window 3

Location 9,674,793 – 9,674,894
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 83.22
Shannon entropy 0.21821
G+C content 0.52149
Mean single sequence MFE -24.47
Consensus MFE -20.97
Energy contribution -20.53
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -2.16
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.71
SVM RNA-class probability 0.962332
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 9674793 101 + 23011544
CAUUCAGACCACUCAGCCCACUCAGCCCGUUCAGCCAUUACGUUAUGGAGGCUUUUCAAGCCUGAAUAGUAAUCGAGUGGGCCACCCUUUUGCCAACGAAU
.((((.((....)).((((((((.((..((((..((((......))))(((((.....))))))))).))....))))))))...............)))) ( -27.50, z-score =  -2.31, R)
>droSec1.super_3 5121213 84 + 7220098
----------------CCCACUCAGCCCACUCAACCAUUCCGUUCUGGAGGCUUUUCAAGCCUGAAUAGUAAUCGAGUGGGCCACCCUUU-GCCACCGAAU
----------------........((((((((..(((........)))(((((.....)))))...........))))))))........-.......... ( -25.10, z-score =  -2.82, R)
>droSim1.chr2L 9452550 84 + 22036055
----------------CCCACUCAACCCAUUCAGCCAUUCCGUUCUGGAGGCUUUUCAAGCCUGAAUAGUAAUCGAGUGGGCCACCCUUU-GCCACCGAAU
----------------(((((((...........(((........)))(((((.....)))))...........))))))).........-.......... ( -20.80, z-score =  -1.34, R)
>consensus
________________CCCACUCAGCCCAUUCAGCCAUUCCGUUCUGGAGGCUUUUCAAGCCUGAAUAGUAAUCGAGUGGGCCACCCUUU_GCCACCGAAU
................(((((((...(((...(((......))).)))(((((.....)))))...........))))))).................... (-20.97 = -20.53 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 9,674,793 – 9,674,894
Length 101
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 83.22
Shannon entropy 0.21821
G+C content 0.52149
Mean single sequence MFE -31.07
Consensus MFE -25.25
Energy contribution -25.37
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.68
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.55
SVM RNA-class probability 0.739267
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 9674793 101 - 23011544
AUUCGUUGGCAAAAGGGUGGCCCACUCGAUUACUAUUCAGGCUUGAAAAGCCUCCAUAACGUAAUGGCUGAACGGGCUGAGUGGGCUGAGUGGUCUGAAUG
(((((..(((....(..((((((((((((.......)).((((((...((((.............))))...))))))))))))))))..).)))))))). ( -33.82, z-score =  -1.70, R)
>droSec1.super_3 5121213 84 - 7220098
AUUCGGUGGC-AAAGGGUGGCCCACUCGAUUACUAUUCAGGCUUGAAAAGCCUCCAGAACGGAAUGGUUGAGUGGGCUGAGUGGG----------------
((((....((-.....))(((((((((((((((..((((((((.....)))))...)))..)..))))))))))))))))))...---------------- ( -30.30, z-score =  -1.74, R)
>droSim1.chr2L 9452550 84 - 22036055
AUUCGGUGGC-AAAGGGUGGCCCACUCGAUUACUAUUCAGGCUUGAAAAGCCUCCAGAACGGAAUGGCUGAAUGGGUUGAGUGGG----------------
....(((.((-.....)).)))((((((((..(((((((((((.....))))(((.....))).....)))))))))))))))..---------------- ( -29.10, z-score =  -1.61, R)
>consensus
AUUCGGUGGC_AAAGGGUGGCCCACUCGAUUACUAUUCAGGCUUGAAAAGCCUCCAGAACGGAAUGGCUGAAUGGGCUGAGUGGG________________
....................((((((((....(((((((((((.....)))).(((........))).)))))))..))))))))................ (-25.25 = -25.37 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:28:46 2011