Locus 12621

Sequence ID dm3.chrX
Location 1,209,143 – 1,209,262
Length 119
Max. P 0.871128
window17357

overview

Window 7

Location 1,209,143 – 1,209,262
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 78.76
Shannon entropy 0.34385
G+C content 0.41739
Mean single sequence MFE -31.79
Consensus MFE -20.59
Energy contribution -22.27
Covariance contribution 1.69
Combinations/Pair 1.21
Mean z-score -1.98
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.00
SVM RNA-class probability 0.871128
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1209143 119 + 22422827
UCGGUCCAACAAAUUCUGGACAACUUGAUGCAUCGCGGAACGUGGCCAAGCGAGUUGCCAUGGUAAGCAUGUUCCAUACUUAUAUUAAAAAAAAAAA-AGUAUGAAAUUAUGUCGUUUAG
...(((((........)))))..((.(((((((...((((((((((((.((.....))..))))...))))))))((((((...............)-)))))......))).)))).)) ( -27.16, z-score =  -1.16, R)
>droSim1.chrX 942132 117 + 17042790
UCGGUCCAAGAAAUUCUGGACAACUUGAUGUG--GUGGAACGUGGCCAAGCGAGUUGCCAUGGCAAGCAUGUUCCAUACUUAUAUUAAAAAAAAAAU-CGUAUGAAUUCAUGACUUUUAG
...(((((........)))))...((((((((--((((((((((((((.((.....))..))))...))))))))))...)))))))).....(((.-..((((....))))...))).. ( -30.70, z-score =  -1.98, R)
>droSec1.super_10 1042235 118 + 3036183
UCGGUCCAAGAAAUUCUGGACAACUUGAUGUG--GUGGAACGUGGCCAAGCGAGUUGCCAUGGCAAGCAUGUUCCAUACUUAUAUUAAAAAAAAAAAACGUAUGAAUUCAUGACUUUUAG
...(((((........)))))...((((((((--((((((((((((((.((.....))..))))...))))))))))...))))))))......((((..((((....))))..)))).. ( -31.00, z-score =  -2.13, R)
>droYak2.chrX 1126853 106 + 21770863
UCGGCGCAAGAAAUUCUGAAGUACUCGGUUUG--GCGGAACGUGGCCAAGCGAGUUGCCAU------CAUGUUUCGAAUGUAUUCCCAAACAAGAGG------GAAUGCAGCUCCUUUGG
..((.((..(((((..(((.(((((((.((((--((........)))))))))).)))..)------)).)))))...(((((((((........))------))))))))).))..... ( -38.30, z-score =  -2.64, R)
>consensus
UCGGUCCAAGAAAUUCUGGACAACUUGAUGUG__GCGGAACGUGGCCAAGCGAGUUGCCAUGGCAAGCAUGUUCCAUACUUAUAUUAAAAAAAAAAA_CGUAUGAAUUCAUGACUUUUAG
...(((((........)))))...((((((((..((((((((((((((.((.....))..))))...))))))))))...))))))))................................ (-20.59 = -22.27 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:05:45 2011