Locus 2724

Sequence ID dm3.chr2L
Location 21,553,821 – 21,553,877
Length 56
Max. P 0.998997
window3742 window3743

overview

Window 2

Location 21,553,821 – 21,553,877
Length 56
Sequences 3
Columns 56
Reading direction forward
Mean pairwise identity 51.79
Shannon entropy 0.69006
G+C content 0.52701
Mean single sequence MFE -17.77
Consensus MFE -13.67
Energy contribution -14.57
Covariance contribution 0.90
Combinations/Pair 1.40
Mean z-score -1.55
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.23
SVM RNA-class probability 0.997992
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 21553821 56 + 23011544
UGUAGAGCGCUGCGGCAGAGGCACGAACAGCCUCUGCAGCUGAGUGAGGUCCGAUC
.......((((((.((((((((.......)))))))).))..)))).......... ( -21.40, z-score =  -0.92, R)
>droSim1.chr2h_random 51068 52 + 3178526
AGUAGCGAAUAAUAAAAUACACGGAAAGCGU-UCCGUUGUUAAGUGAGCAUCA---
....((.....((..((((.((((((....)-)))))))))..))..))....--- (  -8.00, z-score =  -0.42, R)
>droAna3.scaffold_13335 2928326 56 + 3335858
CGAAAGGCAUAGCAGCAGAGACGAUGGUAGUCUCUGCUGGUGAGUGAGGUCCGCUC
(....)......((((((((((.......))))))))))..(((((.....))))) ( -23.90, z-score =  -3.31, R)
>consensus
AGUAGAGCAUAGCAGCAGAGACGAAAACAGUCUCUGCUGCUGAGUGAGGUCCG_UC
......((.(((((((((((((.......))))))))))))).))........... (-13.67 = -14.57 +   0.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 21,553,821 – 21,553,877
Length 56
Sequences 3
Columns 56
Reading direction reverse
Mean pairwise identity 51.79
Shannon entropy 0.69006
G+C content 0.52701
Mean single sequence MFE -15.53
Consensus MFE -11.06
Energy contribution -11.73
Covariance contribution 0.67
Combinations/Pair 1.36
Mean z-score -1.81
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.59
SVM RNA-class probability 0.998997
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 21553821 56 - 23011544
GAUCGGACCUCACUCAGCUGCAGAGGCUGUUCGUGCCUCUGCCGCAGCGCUCUACA
((.((((......)).((.((((((((.......)))))))).))..)).)).... ( -20.50, z-score =  -1.11, R)
>droSim1.chr2h_random 51068 52 - 3178526
---UGAUGCUCACUUAACAACGGA-ACGCUUUCCGUGUAUUUUAUUAUUCGCUACU
---.............(((.((((-(....)))))))).................. (  -6.80, z-score =  -0.80, R)
>droAna3.scaffold_13335 2928326 56 - 3335858
GAGCGGACCUCACUCACCAGCAGAGACUACCAUCGUCUCUGCUGCUAUGCCUUUCG
(((.(.....).)))..((((((((((.......))))))))))............ ( -19.30, z-score =  -3.51, R)
>consensus
GA_CGGACCUCACUCAACAGCAGAGACUAUUACCGUCUCUGCUGCUAUGCCCUACA
................(((((((((((.......)))))))))))........... (-11.06 = -11.73 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:56:40 2011