Locus 1002

Sequence ID dm3.chr2L
Location 7,459,978 – 7,460,080
Length 102
Max. P 0.958818
window1369

overview

Window 9

Location 7,459,978 – 7,460,080
Length 102
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 59.65
Shannon entropy 0.53148
G+C content 0.47892
Mean single sequence MFE -26.83
Consensus MFE -14.34
Energy contribution -11.80
Covariance contribution -2.54
Combinations/Pair 1.56
Mean z-score -1.81
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.66
SVM RNA-class probability 0.958818
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 7459978 102 + 23011544
AACAAACAAAUCGCUAUGGAGACAACCGAAUGUUGCAGAAAGAAUGUCAUACAAACGCAGAACGAUGGUGUGACAUCCAGGGAGACGAGCA------GCCGGAAAACU------------
................((....)).(((...(((((.....(.(((((((((...((.....))...))))))))).)..(....)..)))------)))))......------------ ( -26.30, z-score =  -2.47, R)
>droSec1.super_3 2976822 102 + 7220098
AACAAACAUAUCGCUAUGGAGACAACCGAAUGUUGCAGAAAAAAUGUCAUACAAACGCAGAACGAAGGUGUGACAUCCAGGGAGACGAGCA------GGCGGAAAACU------------
..........(((((.((....)).........(((.......(((((((((...((.....))...)))))))))....(....)..)))------)))))......------------ ( -24.60, z-score =  -2.33, R)
>anoGam1.chr3R 51107205 120 + 53272125
AACAAAACGAUCACCAUCGACAUCAUGAAGUAGGGCAGCAGGAACGCCAUCCAGGUGGUCACGCUCGGGUAGGUAUCGGAGGAAAUAAACACAGCCAGGCACACGACUAGAUAGAGCGUG
........(((((((.(((......)))....(((..((......))..))).)))))))((((((.(((..((..(((..(.........)..)).)..))...))).....)))))). ( -29.60, z-score =  -0.63, R)
>consensus
AACAAACAAAUCGCUAUGGAGACAACCGAAUGUUGCAGAAAGAAUGUCAUACAAACGCAGAACGAAGGUGUGACAUCCAGGGAGACGAGCA______GGCGGAAAACU____________
.............((.((((..((((.....))))..........(((((((.....(.....)...))))))).)))).))...................................... (-14.34 = -11.80 +  -2.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:23:45 2011