Locus 3119

Sequence ID dm3.chr2R
Location 2,669,873 – 2,669,968
Length 95
Max. P 0.956509
window4282 window4283

overview

Window 2

Location 2,669,873 – 2,669,964
Length 91
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 86.93
Shannon entropy 0.18413
G+C content 0.38638
Mean single sequence MFE -24.25
Consensus MFE -21.94
Energy contribution -22.27
Covariance contribution 0.34
Combinations/Pair 1.08
Mean z-score -2.03
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.63
SVM RNA-class probability 0.956509
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 2669873 91 + 21146708
UACAACGUUAAUGUUUGGUGUUCCACGGCGAUAAAACGAAUGAAUUCGCUGGGAGAACCAAUAACUCUUUCUAAGAGCUAUUUAAACGCUU-----------
.....((((.....(((((.((((.((((((..............)))))))))).)))))...((((.....)))).......))))...----------- ( -23.34, z-score =  -2.69, R)
>droSec1.super_1 341912 102 + 14215200
UACAACGUUAAUUUUUGGUGUUCCACGGCGAUAACACGAAUGAAUUUGCUGGGAGAACCAAUAACUCUUUCUAAGAGAUAGUUAAACGUUCUCUGGACGCUU
................(((((((..((((((...((....))...))))))(((((((...(((((.((((...)))).)))))...)))))))))))))). ( -26.40, z-score =  -2.30, R)
>droSim1.chr2R 1483931 102 + 19596830
UACAACGUUAAUUUUUGGUGUUCCACGGUGAUAACACGAAUGAAUUGGCUGGGAGAACCAAUAACUCUUUCUAAGAGAUAGUUAAACGUUCUCUUGACGCUU
......((((((((((.(((((..........))))).)).)))))))).((((((((...(((((.((((...)))).)))))...))))))))....... ( -23.00, z-score =  -1.10, R)
>consensus
UACAACGUUAAUUUUUGGUGUUCCACGGCGAUAACACGAAUGAAUUCGCUGGGAGAACCAAUAACUCUUUCUAAGAGAUAGUUAAACGUUCUCU_GACGCUU
...((((((.....(((((.((((.((((((..............)))))))))).)))))...((((.....)))).......))))))............ (-21.94 = -22.27 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 2,669,877 – 2,669,968
Length 91
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 84.64
Shannon entropy 0.21360
G+C content 0.39657
Mean single sequence MFE -24.25
Consensus MFE -21.34
Energy contribution -21.34
Covariance contribution 0.00
Combinations/Pair 1.09
Mean z-score -1.81
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.28
SVM RNA-class probability 0.921196
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 2669877 91 + 21146708
ACGUUAAUGUUUGGUGUUCCACGGCGAUAAAACGAAUGAAUUCGCUGGGAGAACCAAUAACUCUUUCUAAGAGCUAUUUAAACGCUUCACU-----------
.((((.....(((((.((((.((((((..............)))))))))).)))))...((((.....)))).......)))).......----------- ( -23.34, z-score =  -2.48, R)
>droSec1.super_1 341916 102 + 14215200
ACGUUAAUUUUUGGUGUUCCACGGCGAUAACACGAAUGAAUUUGCUGGGAGAACCAAUAACUCUUUCUAAGAGAUAGUUAAACGUUCUCUGGACGCUUCACU
............(((((((..((((((...((....))...))))))(((((((...(((((.((((...)))).)))))...))))))))))))))..... ( -26.40, z-score =  -2.06, R)
>droSim1.chr2R 1483935 102 + 19596830
ACGUUAAUUUUUGGUGUUCCACGGUGAUAACACGAAUGAAUUGGCUGGGAGAACCAAUAACUCUUUCUAAGAGAUAGUUAAACGUUCUCUUGACGCUUCACU
..((((((((((.(((((..........))))).)).)))))))).((((((((...(((((.((((...)))).)))))...))))))))........... ( -23.00, z-score =  -0.90, R)
>consensus
ACGUUAAUUUUUGGUGUUCCACGGCGAUAACACGAAUGAAUUCGCUGGGAGAACCAAUAACUCUUUCUAAGAGAUAGUUAAACGUUCUCUUGACGCUUCACU
.((((.....(((((.((((.((((((..............)))))))))).)))))...((((.....)))).......)))).................. (-21.34 = -21.34 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:04:02 2011