Locus 12047

Sequence ID dm3.chr3R
Location 25,306,170 – 25,306,262
Length 92
Max. P 0.931717
window16562

overview

Window 2

Location 25,306,170 – 25,306,262
Length 92
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 62.87
Shannon entropy 0.55156
G+C content 0.35129
Mean single sequence MFE -16.77
Consensus MFE -13.21
Energy contribution -13.40
Covariance contribution 0.19
Combinations/Pair 1.30
Mean z-score -0.85
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.36
SVM RNA-class probability 0.931717
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25306170 92 + 27905053
-------AAUAUAUGUAUUACUCAGCCUAGGUGCCAUUGGAUCUGCUAUAUAGUCCCUUUUAAGCGGAAACUAGACA--------UAAAUCGAUUCGAUUUGUAUCA
-------......................(((((.((((((((.(((...............)))(....)......--------......))))))))..))))). ( -14.36, z-score =   0.66, R)
>droSim1.chr3R 24980084 74 + 27517382
-------------------------AGUAGGUGCCAUUGAACCUGCUUUAUUCUCCCUUUAAAGCGGAAACUGGAAA--------UGAAUCGAUUCGAUUUGUAUCA
-------------------------(((((((........)))))))......(((((....)).))).....((.(--------..(((((...)))))..).)). ( -17.00, z-score =  -1.51, R)
>droSec1.super_4 4164729 74 + 6179234
-------------------------AGUAGGUGCCAUUGAACCUGCUUUAUUUUCCCUUUAAAGCGGAAACUGGAAA--------UGAAUCGAUUCGAUUUGUAUCA
-------------------------(((((((........)))))))....(((((((....)).)))))...((.(--------..(((((...)))))..).)). ( -18.60, z-score =  -2.20, R)
>droYak2.chr3R 7654140 105 - 28832112
AGAAAUUUAUUAAAAGAUUAUUUAAAGUAGAUGUCAUUGAUUUUGCUUUAC--UCCACUUUAAGCAAAAACUGGCCUAUUUUCUUUGGAAAGAAUCGAUUUGCAUCA
.............................(((((.(((((((((((((...--........)))))))).((..((..........))..))..)))))..))))). ( -17.10, z-score =  -0.34, R)
>consensus
_________________________AGUAGGUGCCAUUGAACCUGCUUUAUU_UCCCUUUAAAGCGGAAACUGGAAA________UGAAUCGAUUCGAUUUGUAUCA
.............................(((((.((((((((.((((((.........))))))(....)....................))))))))..))))). (-13.21 = -13.40 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:54:41 2011