Locus 1696

Sequence ID dm3.chr2L
Location 13,077,878 – 13,077,947
Length 69
Max. P 0.915929
window2317 window2318

overview

Window 7

Location 13,077,878 – 13,077,947
Length 69
Sequences 4
Columns 69
Reading direction forward
Mean pairwise identity 91.79
Shannon entropy 0.13207
G+C content 0.34569
Mean single sequence MFE -14.23
Consensus MFE -10.77
Energy contribution -11.40
Covariance contribution 0.63
Combinations/Pair 1.11
Mean z-score -2.37
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.77
SVM RNA-class probability 0.813888
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13077878 69 + 23011544
GGUGAGUGCAAAUGAAAUGCAAACAUUAAUGAAUAGCCAAAGAGUUGAUAAAUAGUUUGGCUAAAAUGG
((((..((((.......))))..))))......((((((((..(((....)))..))))))))...... ( -15.90, z-score =  -3.28, R)
>droEre2.scaffold_4929 14275597 68 - 26641161
GGAGAGUGCAAAUGAAAUGCAGGCACUAAUGAAUGGCCAAAGUGUGGAUAAAUAGUUUCG-UAAAGUGG
....(((((...((.....)).))))).........(((...((((((........))))-))...))) ( -10.80, z-score =  -0.26, R)
>droSec1.super_16 1232970 69 + 1878335
UGUGAGUGCAAAUGAAAUGCAAACAUUAAUGAAUAGCCAAAGAGUUGAUAAAUAGUUUGGCUAAAAUGG
(((...((((.......)))).)))........((((((((..(((....)))..))))))))...... ( -15.10, z-score =  -2.98, R)
>droSim1.chr2L 12868151 69 + 22036055
UGUGAGUGCAAAUGAAAUGCAAACAUUAAUGAAUAGCCAAAGAGUUGAUAAAUAGUUUGGCUAAAAUGG
(((...((((.......)))).)))........((((((((..(((....)))..))))))))...... ( -15.10, z-score =  -2.98, R)
>consensus
GGUGAGUGCAAAUGAAAUGCAAACAUUAAUGAAUAGCCAAAGAGUUGAUAAAUAGUUUGGCUAAAAUGG
.(((..((((.......))))..))).......((((((((..(((....)))..))))))))...... (-10.77 = -11.40 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 13,077,878 – 13,077,947
Length 69
Sequences 4
Columns 69
Reading direction reverse
Mean pairwise identity 91.79
Shannon entropy 0.13207
G+C content 0.34569
Mean single sequence MFE -10.58
Consensus MFE -7.72
Energy contribution -8.09
Covariance contribution 0.37
Combinations/Pair 1.06
Mean z-score -2.78
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.25
SVM RNA-class probability 0.915929
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13077878 69 - 23011544
CCAUUUUAGCCAAACUAUUUAUCAACUCUUUGGCUAUUCAUUAAUGUUUGCAUUUCAUUUGCACUCACC
......((((((((..............))))))))........((..((((.......))))..)).. ( -12.04, z-score =  -3.54, R)
>droEre2.scaffold_4929 14275597 68 + 26641161
CCACUUUA-CGAAACUAUUUAUCCACACUUUGGCCAUUCAUUAGUGCCUGCAUUUCAUUUGCACUCUCC
........-......................((((........).)))((((.......))))...... (  -6.20, z-score =  -0.62, R)
>droSec1.super_16 1232970 69 - 1878335
CCAUUUUAGCCAAACUAUUUAUCAACUCUUUGGCUAUUCAUUAAUGUUUGCAUUUCAUUUGCACUCACA
......((((((((..............))))))))........((..((((.......))))..)).. ( -12.04, z-score =  -3.48, R)
>droSim1.chr2L 12868151 69 - 22036055
CCAUUUUAGCCAAACUAUUUAUCAACUCUUUGGCUAUUCAUUAAUGUUUGCAUUUCAUUUGCACUCACA
......((((((((..............))))))))........((..((((.......))))..)).. ( -12.04, z-score =  -3.48, R)
>consensus
CCAUUUUAGCCAAACUAUUUAUCAACUCUUUGGCUAUUCAUUAAUGUUUGCAUUUCAUUUGCACUCACA
.((((.((((((((..............))))))))......))))..((((.......))))...... ( -7.72 =  -8.09 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:36:52 2011