Locus 2075

Sequence ID dm3.chr2L
Location 16,085,708 – 16,085,782
Length 74
Max. P 0.969856
window2854 window2855

overview

Window 4

Location 16,085,708 – 16,085,782
Length 74
Sequences 4
Columns 74
Reading direction forward
Mean pairwise identity 93.61
Shannon entropy 0.10122
G+C content 0.56888
Mean single sequence MFE -30.38
Consensus MFE -27.34
Energy contribution -27.40
Covariance contribution 0.06
Combinations/Pair 1.05
Mean z-score -2.43
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.82
SVM RNA-class probability 0.969856
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16085708 74 + 23011544
UCUAACUGAGAUUCAGUGGGGCUGUUCCCGCGUCCCAUUGGCUUCAGUGCUUCCAGUGGUGCCAGUGGGUCAGG
.....((((......((((((....))))))..(((((((((.(((.((....)).))).))))))))))))). ( -33.10, z-score =  -3.10, R)
>droYak2.chr2L 3078469 72 - 22324452
UCUAACUGAGAUUCAGUGGGGCUGUUACCG--UCCCAUUGGUUUCAGUGGUUCCAAUGCUGCCAGUGGGUCAGG
....((((((((.(((((((((.......)--))))))))))))))))..........(((((....)).))). ( -27.00, z-score =  -2.15, R)
>droSec1.super_5 4819286 72 + 5866729
UCUAACUGAGAUUCAGUGGGGCUGUUCCCG--UCCCAUUGGCUGCAGUGGUUCCAGUGGUGCCAGUGGGUCAGG
....((((.....))))((((....))))(--.(((((((((..((.((....)).))..))))))))).)... ( -30.70, z-score =  -2.26, R)
>droSim1.chr2L 15804796 72 + 22036055
UCUAACUGAGAUUCAGUGGGGCUCUUCCCG--UCCCAUUGGCUGCAGUGGUUCCAGUGGUGCCAGUGGGUCAGG
....((((.....))))((((....))))(--.(((((((((..((.((....)).))..))))))))).)... ( -30.70, z-score =  -2.20, R)
>consensus
UCUAACUGAGAUUCAGUGGGGCUGUUCCCG__UCCCAUUGGCUGCAGUGGUUCCAGUGGUGCCAGUGGGUCAGG
.....((((........((((....))))....(((((((((..((.((....)).))..))))))))))))). (-27.34 = -27.40 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 16,085,708 – 16,085,782
Length 74
Sequences 4
Columns 74
Reading direction reverse
Mean pairwise identity 93.61
Shannon entropy 0.10122
G+C content 0.56888
Mean single sequence MFE -22.27
Consensus MFE -20.38
Energy contribution -20.88
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.40
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.31
SVM RNA-class probability 0.638454
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16085708 74 - 23011544
CCUGACCCACUGGCACCACUGGAAGCACUGAAGCCAAUGGGACGCGGGAACAGCCCCACUGAAUCUCAGUUAGA
.((((((((.((((..((.((....)).))..)))).))))....(((......)))........))))..... ( -23.80, z-score =  -1.58, R)
>droYak2.chr2L 3078469 72 + 22324452
CCUGACCCACUGGCAGCAUUGGAACCACUGAAACCAAUGGGA--CGGUAACAGCCCCACUGAAUCUCAGUUAGA
.((((((((.(((...((.((....)).))...))).)))).--.(((....)))..........))))..... ( -17.70, z-score =  -0.55, R)
>droSec1.super_5 4819286 72 - 5866729
CCUGACCCACUGGCACCACUGGAACCACUGCAGCCAAUGGGA--CGGGAACAGCCCCACUGAAUCUCAGUUAGA
((((.((((.((((..((.((....)).))..)))).)))).--)))).........((((.....)))).... ( -23.80, z-score =  -1.84, R)
>droSim1.chr2L 15804796 72 - 22036055
CCUGACCCACUGGCACCACUGGAACCACUGCAGCCAAUGGGA--CGGGAAGAGCCCCACUGAAUCUCAGUUAGA
((((.((((.((((..((.((....)).))..)))).)))).--)))).........((((.....)))).... ( -23.80, z-score =  -1.63, R)
>consensus
CCUGACCCACUGGCACCACUGGAACCACUGAAGCCAAUGGGA__CGGGAACAGCCCCACUGAAUCUCAGUUAGA
.((((((((.((((..((.((....)).))..)))).))))....(((......)))........))))..... (-20.38 = -20.88 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:44:17 2011